-- dump date 20140619_100510 -- class Genbank::misc_feature -- table misc_feature_note -- id note 469607000001 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 469607000002 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 469607000003 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 469607000004 multiple promoter invertase; Provisional; Region: mpi; PRK13413 469607000005 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 469607000006 catalytic residues [active] 469607000007 catalytic nucleophile [active] 469607000008 Presynaptic Site I dimer interface [polypeptide binding]; other site 469607000009 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 469607000010 Synaptic Flat tetramer interface [polypeptide binding]; other site 469607000011 Synaptic Site I dimer interface [polypeptide binding]; other site 469607000012 DNA binding site [nucleotide binding] 469607000013 Phage associated DNA primase [General function prediction only]; Region: COG3378 469607000014 DNA primase-related protein; Region: MG010; TIGR00646 469607000015 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 469607000016 active site 469607000017 metal binding site [ion binding]; metal-binding site 469607000018 interdomain interaction site; other site 469607000019 S4-like RNA binding protein [Replication, recombination, and repair]; Region: COG2501 469607000020 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 469607000021 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469607000022 Walker A/P-loop; other site 469607000023 ATP binding site [chemical binding]; other site 469607000024 Q-loop/lid; other site 469607000025 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469607000026 ABC transporter signature motif; other site 469607000027 Walker B; other site 469607000028 D-loop; other site 469607000029 H-loop/switch region; other site 469607000030 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 469607000031 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 469607000032 Mg2+ binding site [ion binding]; other site 469607000033 G-X-G motif; other site 469607000034 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 469607000035 anchoring element; other site 469607000036 dimer interface [polypeptide binding]; other site 469607000037 ATP binding site [chemical binding]; other site 469607000038 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 469607000039 active site 469607000040 putative metal-binding site [ion binding]; other site 469607000041 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 469607000042 DNA gyrase subunit A; Validated; Region: PRK05560 469607000043 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 469607000044 CAP-like domain; other site 469607000045 active site 469607000046 primary dimer interface [polypeptide binding]; other site 469607000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 469607000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 469607000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 469607000050 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 469607000051 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 469607000052 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 469607000053 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 469607000054 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 469607000055 active site 469607000056 metal binding site [ion binding]; metal-binding site 469607000057 homotetramer interface [polypeptide binding]; other site 469607000058 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 469607000059 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 469607000060 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 469607000061 dimer interface [polypeptide binding]; other site 469607000062 motif 1; other site 469607000063 active site 469607000064 motif 2; other site 469607000065 motif 3; other site 469607000066 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 469607000067 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 469607000068 putative tRNA-binding site [nucleotide binding]; other site 469607000069 B3/4 domain; Region: B3_4; pfam03483 469607000070 tRNA synthetase B5 domain; Region: B5; pfam03484 469607000071 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 469607000072 dimer interface [polypeptide binding]; other site 469607000073 motif 1; other site 469607000074 motif 3; other site 469607000075 motif 2; other site 469607000076 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 469607000077 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469607000078 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469607000079 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469607000080 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 469607000081 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 469607000082 NAD binding site [chemical binding]; other site 469607000083 homodimer interface [polypeptide binding]; other site 469607000084 active site 469607000085 substrate binding site [chemical binding]; other site 469607000086 Galactose-1-phosphate uridyltransferase [Carbohydrate transport and metabolism]; Region: GalT; COG4468 469607000087 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 469607000088 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 469607000089 galactokinase; Provisional; Region: PRK05322 469607000090 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 469607000091 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 469607000092 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 469607000093 Predicted membrane protein [Function unknown]; Region: COG1288 469607000094 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 469607000095 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 469607000096 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 469607000097 Domain of unknown function (DUF1413); Region: DUF1413; pfam07205 469607000098 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 469607000099 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469607000100 Walker A/P-loop; other site 469607000101 ATP binding site [chemical binding]; other site 469607000102 Q-loop/lid; other site 469607000103 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 469607000104 ABC transporter; Region: ABC_tran_2; pfam12848 469607000105 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 469607000106 EamA-like transporter family; Region: EamA; cl17759 469607000107 EamA-like transporter family; Region: EamA; pfam00892 469607000108 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 469607000109 active site 469607000110 catalytic triad [active] 469607000111 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 469607000112 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 469607000113 Walker A motif; other site 469607000114 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 469607000115 Type II/IV secretion system protein; Region: T2SE; pfam00437 469607000116 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 469607000117 Walker A motif; other site 469607000118 ATP binding site [chemical binding]; other site 469607000119 Walker B motif; other site 469607000120 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 469607000121 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 469607000122 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 469607000123 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 469607000124 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 469607000125 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 469607000126 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 469607000127 Cna protein B-type domain; Region: Cna_B_2; pfam13715 469607000128 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 469607000129 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 469607000130 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 469607000131 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 469607000132 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 469607000133 Predicted membrane protein [Function unknown]; Region: COG3212 469607000134 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 469607000135 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 469607000136 FMN-binding domain; Region: FMN_bind; cl01081 469607000137 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 469607000138 L-aspartate oxidase; Provisional; Region: PRK06175 469607000139 Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC. Proteins containing a redox active CXXC motif like TRX and glutaredoxin (GRX)...; Region: ArsC_like; cd03036 469607000140 putative ArsC-like catalytic residues; other site 469607000141 putative TRX-like catalytic residues [active] 469607000142 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 469607000143 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 469607000144 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 469607000145 active site 469607000146 HIGH motif; other site 469607000147 dimer interface [polypeptide binding]; other site 469607000148 KMSKS motif; other site 469607000149 S4 RNA-binding domain; Region: S4; smart00363 469607000150 RNA binding surface [nucleotide binding]; other site 469607000151 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 469607000152 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 469607000153 Coenzyme A binding pocket [chemical binding]; other site 469607000154 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 469607000155 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 469607000156 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 469607000157 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 469607000158 minor groove reading motif; other site 469607000159 helix-hairpin-helix signature motif; other site 469607000160 substrate binding pocket [chemical binding]; other site 469607000161 active site 469607000162 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 469607000163 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 469607000164 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 469607000165 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 469607000166 catalytic residue [active] 469607000167 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 469607000168 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 469607000169 trimerization site [polypeptide binding]; other site 469607000170 active site 469607000171 TATA Binding Protein (TBP) Associated Factor 7 (TAF7) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex; Region: TAF7; cl04653 469607000172 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 469607000173 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 469607000174 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 469607000175 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 469607000176 active site 469607000177 Zn binding site [ion binding]; other site 469607000178 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 469607000179 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 469607000180 DNA methylase; Region: N6_N4_Mtase; pfam01555 469607000181 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 469607000182 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 469607000183 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 469607000184 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 469607000185 RNA binding site [nucleotide binding]; other site 469607000186 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 469607000187 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 469607000188 ATP binding site [chemical binding]; other site 469607000189 Mg2+ binding site [ion binding]; other site 469607000190 G-X-G motif; other site 469607000191 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 469607000192 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 469607000193 HIGH motif; other site 469607000194 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 469607000195 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 469607000196 active site 469607000197 KMSKS motif; other site 469607000198 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 469607000199 tRNA binding surface [nucleotide binding]; other site 469607000200 anticodon binding site; other site 469607000201 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 469607000202 Signal peptidase (SPase) II; Region: Peptidase_A8; pfam01252 469607000203 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 469607000204 dimer interface [polypeptide binding]; other site 469607000205 motif 1; other site 469607000206 active site 469607000207 motif 2; other site 469607000208 motif 3; other site 469607000209 Glycyl-tRNA synthetase, beta subunit [Translation, ribosomal structure and biogenesis]; Region: GlyS; COG0751 469607000210 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 469607000211 GTP cyclohydrolase I [Coenzyme metabolism]; Region: FolE; COG0302 469607000212 GTP cyclohydrolase I; Provisional; Region: PLN03044 469607000213 active site 469607000214 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 469607000215 homooctamer interface [polypeptide binding]; other site 469607000216 active site 469607000217 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 469607000218 catalytic center binding site [active] 469607000219 ATP binding site [chemical binding]; other site 469607000220 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 469607000221 dihydropteroate synthase; Region: DHPS; TIGR01496 469607000222 substrate binding pocket [chemical binding]; other site 469607000223 dimer interface [polypeptide binding]; other site 469607000224 inhibitor binding site; inhibition site 469607000225 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 469607000226 putative hexamer interface [polypeptide binding]; other site 469607000227 putative hexagonal pore; other site 469607000228 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 469607000229 G1 box; other site 469607000230 GTP/Mg2+ binding site [chemical binding]; other site 469607000231 G2 box; other site 469607000232 Switch I region; other site 469607000233 G3 box; other site 469607000234 Switch II region; other site 469607000235 G4 box; other site 469607000236 G5 box; other site 469607000237 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 469607000238 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 469607000239 active site 469607000240 phosphorylation site [posttranslational modification] 469607000241 intermolecular recognition site; other site 469607000242 dimerization interface [polypeptide binding]; other site 469607000243 ANTAR domain; Region: ANTAR; pfam03861 469607000244 Signal transduction histidine kinase; Region: H_kinase_N; pfam12282 469607000245 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 469607000246 Histidine kinase; Region: HisKA_2; pfam07568 469607000247 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 469607000248 ATP binding site [chemical binding]; other site 469607000249 Mg2+ binding site [ion binding]; other site 469607000250 G-X-G motif; other site 469607000251 Ethanolamine utilization protein, possible chaperonin protecting lyase from inhibition [Amino acid transport and metabolism]; Region: EutA; COG4819 469607000252 Ethanolamine ammonia-lyase, large subunit [Amino acid transport and metabolism]; Region: EutB; COG4303 469607000253 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 469607000254 Ethanolamine ammonia-lyase, small subunit [Amino acid transport and metabolism]; Region: EutC; COG4302 469607000255 ethanolamine utilization protein EutL; Provisional; Region: PRK15405 469607000256 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_EutL_repeat1; cd07049 469607000257 putative hexamer interface [polypeptide binding]; other site 469607000258 putative hexagonal pore; other site 469607000259 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_EutL_repeat2; cd07050 469607000260 putative hexamer interface [polypeptide binding]; other site 469607000261 putative hexagonal pore; other site 469607000262 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 469607000263 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 469607000264 Hexamer interface [polypeptide binding]; other site 469607000265 Hexagonal pore residue; other site 469607000266 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 469607000267 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 469607000268 Hexamer interface [polypeptide binding]; other site 469607000269 Putative hexagonal pore residue; other site 469607000270 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 469607000271 putative catalytic cysteine [active] 469607000272 Ethanolamine utilization cobalamin adenosyltransferase [Amino acid transport and metabolism]; Region: EutT; COG4812 469607000273 ethanolamine utilization protein; Region: eut_hyp; TIGR02536 469607000274 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 469607000275 Hexamer/Pentamer interface [polypeptide binding]; other site 469607000276 central pore; other site 469607000277 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 469607000278 Ethanolamine utilisation protein, EutH; Region: EutH; pfam04346 469607000279 Ethanolamine utilisation protein EutQ; Region: EutQ; pfam06249 469607000280 ethanolamine utilization protein EutQ; Provisional; Region: PRK15457 469607000281 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 469607000282 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 469607000283 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism; Region: PDD; cd08180 469607000284 putative active site [active] 469607000285 metal binding site [ion binding]; metal-binding site 469607000286 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 469607000287 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 469607000288 catalytic residues [active] 469607000289 Inorganic pyrophosphatase [Energy production and conversion]; Region: Ppa; COG0221 469607000290 metal binding sites [ion binding]; metal-binding site 469607000291 dimer interface [polypeptide binding]; other site 469607000292 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 469607000293 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; cd00322 469607000294 FAD binding pocket [chemical binding]; other site 469607000295 conserved FAD binding motif [chemical binding]; other site 469607000296 phosphate binding motif [ion binding]; other site 469607000297 beta-alpha-beta structure motif; other site 469607000298 NAD binding pocket [chemical binding]; other site 469607000299 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 469607000300 ATP cone domain; Region: ATP-cone; pfam03477 469607000301 Ribonucleotide reductase, alpha subunit [Nucleotide transport and metabolism]; Region: NrdA; COG0209 469607000302 Class I ribonucleotide reductase; Region: RNR_I; cd01679 469607000303 active site 469607000304 dimer interface [polypeptide binding]; other site 469607000305 catalytic residues [active] 469607000306 effector binding site; other site 469607000307 R2 peptide binding site; other site 469607000308 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 469607000309 dimer interface [polypeptide binding]; other site 469607000310 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 469607000311 putative radical transfer pathway; other site 469607000312 diiron center [ion binding]; other site 469607000313 tyrosyl radical; other site 469607000314 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 469607000315 catalytic residues [active] 469607000316 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 469607000317 Predicted transcriptional regulator [Transcription]; Region: COG2378 469607000318 HTH domain; Region: HTH_11; pfam08279 469607000319 WYL domain; Region: WYL; pfam13280 469607000320 Uncharacterized conserved protein [Function unknown]; Region: COG4832 469607000321 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 469607000322 Na binding site [ion binding]; other site 469607000323 seryl-tRNA synthetase; Provisional; Region: PRK05431 469607000324 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 469607000325 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 469607000326 dimer interface [polypeptide binding]; other site 469607000327 active site 469607000328 motif 1; other site 469607000329 motif 2; other site 469607000330 motif 3; other site 469607000331 Domain of unknown function (DUF4298); Region: DUF4298; pfam14131 469607000332 YcfA-like protein; Region: YcfA; pfam07927 469607000333 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 469607000334 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 469607000335 heat shock gene repressor HrcA; Region: hrcA; TIGR00331 469607000336 GrpE; Region: GrpE; pfam01025 469607000337 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 469607000338 dimer interface [polypeptide binding]; other site 469607000339 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 469607000340 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 469607000341 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 469607000342 nucleotide binding site [chemical binding]; other site 469607000343 NEF interaction site [polypeptide binding]; other site 469607000344 SBD interface [polypeptide binding]; other site 469607000345 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 469607000346 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 469607000347 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 469607000348 DNA binding site [nucleotide binding] 469607000349 chaperone protein DnaJ; Provisional; Region: PRK10767 469607000350 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 469607000351 HSP70 interaction site [polypeptide binding]; other site 469607000352 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 469607000353 substrate binding site [polypeptide binding]; other site 469607000354 dimer interface [polypeptide binding]; other site 469607000355 AAA domain; Region: AAA_22; pfam13401 469607000356 AAA domain; Region: AAA_14; pfam13173 469607000357 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 469607000358 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 469607000359 Probable transposase; Region: OrfB_IS605; pfam01385 469607000360 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 469607000361 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1672 469607000362 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 469607000363 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 469607000364 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 469607000365 FeS/SAM binding site; other site 469607000366 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 469607000367 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 469607000368 Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]; Region: HypB; COG0378 469607000369 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469607000370 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 469607000371 Walker A/P-loop; other site 469607000372 ATP binding site [chemical binding]; other site 469607000373 Q-loop/lid; other site 469607000374 ABC transporter signature motif; other site 469607000375 Walker B; other site 469607000376 D-loop; other site 469607000377 H-loop/switch region; other site 469607000378 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 469607000379 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 469607000380 intersubunit interface [polypeptide binding]; other site 469607000381 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 469607000382 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 469607000383 intersubunit interface [polypeptide binding]; other site 469607000384 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 469607000385 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 469607000386 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 469607000387 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 469607000388 ABC-ATPase subunit interface; other site 469607000389 dimer interface [polypeptide binding]; other site 469607000390 putative PBP binding regions; other site 469607000391 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 469607000392 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 469607000393 intersubunit interface [polypeptide binding]; other site 469607000394 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 469607000395 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 469607000396 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 469607000397 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 469607000398 metal binding site [ion binding]; metal-binding site 469607000399 dimer interface [polypeptide binding]; other site 469607000400 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 469607000401 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 469607000402 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 469607000403 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 469607000404 active site 469607000405 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 469607000406 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 469607000407 dimer interface [polypeptide binding]; other site 469607000408 conserved gate region; other site 469607000409 putative PBP binding loops; other site 469607000410 ABC-ATPase subunit interface; other site 469607000411 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 469607000412 dimer interface [polypeptide binding]; other site 469607000413 conserved gate region; other site 469607000414 putative PBP binding loops; other site 469607000415 ABC-ATPase subunit interface; other site 469607000416 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 469607000417 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469607000418 Walker A/P-loop; other site 469607000419 ATP binding site [chemical binding]; other site 469607000420 Q-loop/lid; other site 469607000421 ABC transporter signature motif; other site 469607000422 Walker B; other site 469607000423 D-loop; other site 469607000424 H-loop/switch region; other site 469607000425 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 469607000426 dimerization domain swap beta strand [polypeptide binding]; other site 469607000427 regulatory protein interface [polypeptide binding]; other site 469607000428 active site 469607000429 regulatory phosphorylation site [posttranslational modification]; other site 469607000430 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 469607000431 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 469607000432 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 469607000433 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 469607000434 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 469607000435 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 469607000436 putative active site [active] 469607000437 nucleotide binding site [chemical binding]; other site 469607000438 nudix motif; other site 469607000439 putative metal binding site [ion binding]; other site 469607000440 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 469607000441 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 469607000442 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 469607000443 homodimer interface [polypeptide binding]; other site 469607000444 Walker A motif; other site 469607000445 ATP binding site [chemical binding]; other site 469607000446 hydroxycobalamin binding site [chemical binding]; other site 469607000447 Walker B motif; other site 469607000448 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 469607000449 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 469607000450 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 469607000451 homotrimer interaction site [polypeptide binding]; other site 469607000452 zinc binding site [ion binding]; other site 469607000453 CDP-binding sites; other site 469607000454 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 469607000455 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 469607000456 putative ribose interaction site [chemical binding]; other site 469607000457 putative ADP binding site [chemical binding]; other site 469607000458 Ethanolamine utilization protein, possible chaperonin [Amino acid transport and metabolism]; Region: EutJ; COG4820 469607000459 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 469607000460 nucleotide binding site [chemical binding]; other site 469607000461 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 469607000462 dimerization domain swap beta strand [polypeptide binding]; other site 469607000463 regulatory protein interface [polypeptide binding]; other site 469607000464 active site 469607000465 regulatory phosphorylation site [posttranslational modification]; other site 469607000466 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 469607000467 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 469607000468 Ribosomal protein S1 [Translation, ribosomal structure and biogenesis]; Region: RpsA; COG0539 469607000469 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 469607000470 RNA binding site [nucleotide binding]; other site 469607000471 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 469607000472 RNA binding site [nucleotide binding]; other site 469607000473 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cd00164 469607000474 RNA binding site [nucleotide binding]; other site 469607000475 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 469607000476 RNA binding site [nucleotide binding]; other site 469607000477 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 469607000478 Transposase; Region: DDE_Tnp_ISL3; pfam01610 469607000479 Domain of unknown function (DUF4261); Region: DUF4261; pfam14080 469607000480 pyruvate kinase; Provisional; Region: PRK09206 469607000481 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 469607000482 domain interfaces; other site 469607000483 active site 469607000484 enolase; Provisional; Region: eno; PRK00077 469607000485 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 469607000486 dimer interface [polypeptide binding]; other site 469607000487 metal binding site [ion binding]; metal-binding site 469607000488 substrate binding pocket [chemical binding]; other site 469607000489 HutD; Region: HutD; cl01532 469607000490 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09652 469607000491 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 469607000492 CRISPR-associated protein Cas5, subtype I-B/HMARI; Region: cas_Cas5h; TIGR02592 469607000493 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cl12040 469607000494 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 469607000495 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 469607000496 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 469607000497 Domain of unknown function DUF83; Region: Cas_Cas4; pfam01930 469607000498 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 469607000499 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 469607000500 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 469607000501 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 469607000502 active site 469607000503 catalytic site [active] 469607000504 metal binding site [ion binding]; metal-binding site 469607000505 dimer interface [polypeptide binding]; other site 469607000506 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 469607000507 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 469607000508 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 469607000509 putative ADP-ribose binding site [chemical binding]; other site 469607000510 putative active site [active] 469607000511 Aminopeptidase P, N-terminal domain; Region: AMP_N; smart01011 469607000512 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 469607000513 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 469607000514 active site 469607000515 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Sulfolobus solfataricus (Ss) and its homologs from archaea and bacteria; Region: NTP-PPase_SsMazG; cd11535 469607000516 metal binding site [ion binding]; metal-binding site 469607000517 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG0779 469607000518 Sm and related proteins; Region: Sm_like; cl00259 469607000519 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 469607000520 putative oligomer interface [polypeptide binding]; other site 469607000521 putative RNA binding site [nucleotide binding]; other site 469607000522 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 469607000523 NusA N-terminal domain; Region: NusA_N; pfam08529 469607000524 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 469607000525 RNA binding site [nucleotide binding]; other site 469607000526 homodimer interface [polypeptide binding]; other site 469607000527 NusA-like KH domain; Region: KH_5; pfam13184 469607000528 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 469607000529 G-X-X-G motif; other site 469607000530 Predicted nucleic-acid-binding protein implicated in transcription termination [Transcription]; Region: COG2740 469607000531 putative RNA binding cleft [nucleotide binding]; other site 469607000532 Ribosomal protein HS6-type (S12/L30/L7a) [Translation, ribosomal structure and biogenesis]; Region: RPL8A; COG1358 469607000533 translation initiation factor IF-2; Validated; Region: infB; PRK05306 469607000534 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 469607000535 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 469607000536 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 469607000537 G1 box; other site 469607000538 putative GEF interaction site [polypeptide binding]; other site 469607000539 GTP/Mg2+ binding site [chemical binding]; other site 469607000540 Switch I region; other site 469607000541 G2 box; other site 469607000542 G3 box; other site 469607000543 Switch II region; other site 469607000544 G4 box; other site 469607000545 G5 box; other site 469607000546 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 469607000547 Translation-initiation factor 2; Region: IF-2; pfam11987 469607000548 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 469607000549 Ribosome-binding factor A [Translation, ribosomal structure and biogenesis]; Region: RbfA; COG0858 469607000550 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 469607000551 DHH family; Region: DHH; pfam01368 469607000552 DHHA1 domain; Region: DHHA1; pfam02272 469607000553 FKBP-type peptidyl-prolyl cis-trans isomerase (trigger factor) [Posttranslational modification, protein turnover, chaperones]; Region: Tig; COG0544 469607000554 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 469607000555 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 469607000556 Clp protease; Region: CLP_protease; pfam00574 469607000557 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 469607000558 oligomer interface [polypeptide binding]; other site 469607000559 active site residues [active] 469607000560 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 469607000561 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 469607000562 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 469607000563 Walker A motif; other site 469607000564 ATP binding site [chemical binding]; other site 469607000565 Walker B motif; other site 469607000566 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 469607000567 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 469607000568 Found in ATP-dependent protease La (LON); Region: LON; smart00464 469607000569 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 469607000570 Walker A motif; other site 469607000571 ATP binding site [chemical binding]; other site 469607000572 Walker B motif; other site 469607000573 arginine finger; other site 469607000574 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 469607000575 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 469607000576 G1 box; other site 469607000577 GTP/Mg2+ binding site [chemical binding]; other site 469607000578 Switch I region; other site 469607000579 G2 box; other site 469607000580 G3 box; other site 469607000581 Switch II region; other site 469607000582 G4 box; other site 469607000583 G5 box; other site 469607000584 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 469607000585 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 469607000586 active site 469607000587 HIGH motif; other site 469607000588 nucleotide binding site [chemical binding]; other site 469607000589 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 469607000590 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 469607000591 active site 469607000592 KMSKS motif; other site 469607000593 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 469607000594 tRNA binding surface [nucleotide binding]; other site 469607000595 anticodon binding site; other site 469607000596 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 469607000597 Transcriptional regulators [Transcription]; Region: MarR; COG1846 469607000598 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 469607000599 non-specific DNA interactions [nucleotide binding]; other site 469607000600 DNA binding site [nucleotide binding] 469607000601 sequence specific DNA binding site [nucleotide binding]; other site 469607000602 putative cAMP binding site [chemical binding]; other site 469607000603 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 469607000604 dimer interface [polypeptide binding]; other site 469607000605 conserved gate region; other site 469607000606 putative PBP binding loops; other site 469607000607 ABC-ATPase subunit interface; other site 469607000608 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 469607000609 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 469607000610 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469607000611 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 469607000612 Walker A/P-loop; other site 469607000613 ATP binding site [chemical binding]; other site 469607000614 Q-loop/lid; other site 469607000615 ABC transporter signature motif; other site 469607000616 Walker B; other site 469607000617 D-loop; other site 469607000618 H-loop/switch region; other site 469607000619 Quinone oxidoreductase (QOR); Region: quinone_oxidoreductase_like_1; cd08243 469607000620 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 469607000621 putative NAD(P) binding site [chemical binding]; other site 469607000622 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 469607000623 catalytic residues [active] 469607000624 dimer interface [polypeptide binding]; other site 469607000625 HEAT repeats; Region: HEAT_2; pfam13646 469607000626 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 469607000627 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 469607000628 CoA-binding site [chemical binding]; other site 469607000629 ATP-binding [chemical binding]; other site 469607000630 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 469607000631 Peptidase family U32; Region: Peptidase_U32; pfam01136 469607000632 Collagenase; Region: DUF3656; pfam12392 469607000633 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 469607000634 tetramer interfaces [polypeptide binding]; other site 469607000635 binuclear metal-binding site [ion binding]; other site 469607000636 competence damage-inducible protein A; Provisional; Region: PRK00549 469607000637 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 469607000638 putative MPT binding site; other site 469607000639 Mitovirus RNA-dependent RNA polymerase; Region: Mitovir_RNA_pol; pfam05919 469607000640 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 469607000641 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 469607000642 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 469607000643 non-specific DNA binding site [nucleotide binding]; other site 469607000644 salt bridge; other site 469607000645 sequence-specific DNA binding site [nucleotide binding]; other site 469607000646 Cupin domain; Region: Cupin_2; pfam07883 469607000647 Predicted kinase related to dihydroxyacetone kinase [General function prediction only]; Region: COG1461 469607000648 DAK2 domain; Region: Dak2; pfam02734 469607000649 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DegV; COG1307 469607000650 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 469607000651 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 469607000652 active site 469607000653 phosphorylation site [posttranslational modification] 469607000654 FOG: CBS domain [General function prediction only]; Region: COG0517 469607000655 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 469607000656 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 469607000657 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 469607000658 transmembrane helices; other site 469607000659 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 469607000660 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 469607000661 transmembrane helices; other site 469607000662 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 469607000663 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 469607000664 Probable transposase; Region: OrfB_IS605; pfam01385 469607000665 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 469607000666 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 469607000667 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 469607000668 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 469607000669 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 469607000670 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 469607000671 Ligand Binding Site [chemical binding]; other site 469607000672 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 469607000673 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 469607000674 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 469607000675 GTPase CgtA; Reviewed; Region: obgE; PRK12297 469607000676 GTP1/OBG; Region: GTP1_OBG; pfam01018 469607000677 Obg GTPase; Region: Obg; cd01898 469607000678 G1 box; other site 469607000679 GTP/Mg2+ binding site [chemical binding]; other site 469607000680 Switch I region; other site 469607000681 G2 box; other site 469607000682 G3 box; other site 469607000683 Switch II region; other site 469607000684 G4 box; other site 469607000685 G5 box; other site 469607000686 Obg family GTPase CgtA, C-terminal extension; Region: Obg_CgtA_exten; TIGR03595 469607000687 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 469607000688 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 469607000689 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 469607000690 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 469607000691 ATP binding site [chemical binding]; other site 469607000692 Mg2+ binding site [ion binding]; other site 469607000693 G-X-G motif; other site 469607000694 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 469607000695 anti sigma factor interaction site; other site 469607000696 regulatory phosphorylation site [posttranslational modification]; other site 469607000697 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 469607000698 phosphodiesterase; Provisional; Region: PRK12704 469607000699 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 469607000700 Zn2+ binding site [ion binding]; other site 469607000701 Mg2+ binding site [ion binding]; other site 469607000702 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 469607000703 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 469607000704 SEC-C motif; Region: SEC-C; pfam02810 469607000705 NAD-dependent DNA ligase (contains BRCT domain type II) [DNA replication, recombination, and repair]; Region: Lig; COG0272 469607000706 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 469607000707 nucleotide binding pocket [chemical binding]; other site 469607000708 K-X-D-G motif; other site 469607000709 catalytic site [active] 469607000710 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 469607000711 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 469607000712 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 469607000713 Dimer interface [polypeptide binding]; other site 469607000714 BRCT sequence motif; other site 469607000715 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 469607000716 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 469607000717 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 469607000718 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 469607000719 putative active site [active] 469607000720 putative NTP binding site [chemical binding]; other site 469607000721 putative nucleic acid binding site [nucleotide binding]; other site 469607000722 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 469607000723 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 469607000724 S-adenosylmethionine binding site [chemical binding]; other site 469607000725 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 469607000726 MraW methylase family; Region: Methyltransf_5; cl17771 469607000727 YGGT family; Region: YGGT; pfam02325 469607000728 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 469607000729 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 469607000730 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 469607000731 RNase E interface [polypeptide binding]; other site 469607000732 trimer interface [polypeptide binding]; other site 469607000733 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 469607000734 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 469607000735 RNase E interface [polypeptide binding]; other site 469607000736 trimer interface [polypeptide binding]; other site 469607000737 active site 469607000738 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 469607000739 putative nucleic acid binding region [nucleotide binding]; other site 469607000740 G-X-X-G motif; other site 469607000741 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 469607000742 RNA binding site [nucleotide binding]; other site 469607000743 domain interface; other site 469607000744 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 469607000745 active site 469607000746 catalytic residues [active] 469607000747 hypothetical protein; Provisional; Region: PRK10621 469607000748 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 469607000749 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 469607000750 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 469607000751 active site 469607000752 nucleophile elbow; other site 469607000753 Surface antigen; Region: Bac_surface_Ag; pfam01103 469607000754 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 469607000755 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 469607000756 NADP binding site [chemical binding]; other site 469607000757 homopentamer interface [polypeptide binding]; other site 469607000758 substrate binding site [chemical binding]; other site 469607000759 active site 469607000760 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 469607000761 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 469607000762 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 469607000763 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 469607000764 NADP binding site [chemical binding]; other site 469607000765 active site 469607000766 putative substrate binding site [chemical binding]; other site 469607000767 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 469607000768 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 469607000769 NAD(P) binding site [chemical binding]; other site 469607000770 homodimer interface [polypeptide binding]; other site 469607000771 substrate binding site [chemical binding]; other site 469607000772 active site 469607000773 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 469607000774 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 469607000775 inhibitor-cofactor binding pocket; inhibition site 469607000776 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469607000777 catalytic residue [active] 469607000778 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 469607000779 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 469607000780 putative trimer interface [polypeptide binding]; other site 469607000781 putative CoA binding site [chemical binding]; other site 469607000782 Bacterial sugar transferase; Region: Bac_transf; pfam02397 469607000783 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 469607000784 putative trimer interface [polypeptide binding]; other site 469607000785 putative CoA binding site [chemical binding]; other site 469607000786 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 469607000787 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 469607000788 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 469607000789 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 469607000790 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 469607000791 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 469607000792 inhibitor-cofactor binding pocket; inhibition site 469607000793 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469607000794 catalytic residue [active] 469607000795 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 469607000796 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 469607000797 putative trimer interface [polypeptide binding]; other site 469607000798 putative CoA binding site [chemical binding]; other site 469607000799 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 469607000800 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 469607000801 putative trimer interface [polypeptide binding]; other site 469607000802 putative CoA binding site [chemical binding]; other site 469607000803 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 469607000804 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 469607000805 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 469607000806 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 469607000807 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 469607000808 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 469607000809 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 469607000810 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 469607000811 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 469607000812 AAA ATPase domain; Region: AAA_15; pfam13175 469607000813 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 469607000814 putative active site [active] 469607000815 putative metal-binding site [ion binding]; other site 469607000816 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 469607000817 Family description; Region: UvrD_C_2; pfam13538 469607000818 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 469607000819 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 469607000820 NAD binding site [chemical binding]; other site 469607000821 substrate binding site [chemical binding]; other site 469607000822 homodimer interface [polypeptide binding]; other site 469607000823 active site 469607000824 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 469607000825 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 469607000826 hypothetical protein; Validated; Region: PRK00110 469607000827 RecG-like helicase [DNA replication, recombination, and repair / Transcription]; Region: RecG; COG1200 469607000828 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 469607000829 generic binding surface II; other site 469607000830 ssDNA binding site; other site 469607000831 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 469607000832 ATP binding site [chemical binding]; other site 469607000833 putative Mg++ binding site [ion binding]; other site 469607000834 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 469607000835 nucleotide binding region [chemical binding]; other site 469607000836 ATP-binding site [chemical binding]; other site 469607000837 prolyl-tRNA synthetase; Provisional; Region: PRK09194 469607000838 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 469607000839 dimer interface [polypeptide binding]; other site 469607000840 motif 1; other site 469607000841 active site 469607000842 motif 2; other site 469607000843 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 469607000844 putative deacylase active site [active] 469607000845 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 469607000846 active site 469607000847 motif 3; other site 469607000848 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 469607000849 anticodon binding site; other site 469607000850 Ribosomal protein S6; Region: Ribosomal_S6; pfam01250 469607000851 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 469607000852 Peptidase family M48; Region: Peptidase_M48; cl12018 469607000853 Uncharacterized conserved protein [Function unknown]; Region: COG2461 469607000854 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 469607000855 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 469607000856 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 469607000857 ribosome recycling factor; Reviewed; Region: frr; PRK00083 469607000858 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 469607000859 hinge region; other site 469607000860 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 469607000861 putative nucleotide binding site [chemical binding]; other site 469607000862 uridine monophosphate binding site [chemical binding]; other site 469607000863 homohexameric interface [polypeptide binding]; other site 469607000864 elongation factor Ts; Provisional; Region: tsf; PRK09377 469607000865 UBA/TS-N domain; Region: UBA; pfam00627 469607000866 Elongation factor TS; Region: EF_TS; pfam00889 469607000867 Elongation factor TS; Region: EF_TS; pfam00889 469607000868 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 469607000869 rRNA interaction site [nucleotide binding]; other site 469607000870 S8 interaction site; other site 469607000871 putative laminin-1 binding site; other site 469607000872 Asp23 family; Region: Asp23; pfam03780 469607000873 Small integral membrane protein (DUF2273); Region: DUF2273; cl11575 469607000874 transcription antitermination factor NusB; Region: nusB; TIGR01951 469607000875 putative RNA binding site [nucleotide binding]; other site 469607000876 Predicted membrane protein [Function unknown]; Region: COG1971 469607000877 Domain of unknown function DUF; Region: DUF204; pfam02659 469607000878 Domain of unknown function DUF; Region: DUF204; pfam02659 469607000879 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 469607000880 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 469607000881 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 469607000882 Walker A motif; other site 469607000883 ATP binding site [chemical binding]; other site 469607000884 Walker B motif; other site 469607000885 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 469607000886 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 469607000887 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 469607000888 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 469607000889 Walker A motif; other site 469607000890 ATP binding site [chemical binding]; other site 469607000891 Walker B motif; other site 469607000892 coproporphyrinogen III oxidase; Provisional; Region: PRK08207 469607000893 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 469607000894 FeS/SAM binding site; other site 469607000895 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 469607000896 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 469607000897 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 469607000898 dimerization interface [polypeptide binding]; other site 469607000899 domain crossover interface; other site 469607000900 redox-dependent activation switch; other site 469607000901 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 469607000902 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 469607000903 putative active site [active] 469607000904 metal binding site [ion binding]; metal-binding site 469607000905 homodimer binding site [polypeptide binding]; other site 469607000906 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 469607000907 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 469607000908 S-adenosylmethionine binding site [chemical binding]; other site 469607000909 Divergent AAA domain; Region: AAA_4; pfam04326 469607000910 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 469607000911 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 469607000912 cytidylate kinase; Provisional; Region: cmk; PRK00023 469607000913 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 469607000914 CMP-binding site; other site 469607000915 The sites determining sugar specificity; other site 469607000916 Bacterial SH3 domain; Region: SH3_4; pfam06347 469607000917 Bacterial SH3 domain; Region: SH3_3; cl17532 469607000918 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 469607000919 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 469607000920 Predicted S-adenosylmethionine-dependent methyltransferase [General function prediction only]; Region: COG0220 469607000921 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 469607000922 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 469607000923 GDP-binding site [chemical binding]; other site 469607000924 ACT binding site; other site 469607000925 IMP binding site; other site 469607000926 Predicted kinase [General function prediction only]; Region: COG4639 469607000927 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 469607000928 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 469607000929 active site 469607000930 metal binding site [ion binding]; metal-binding site 469607000931 RNA ligase; Region: RNA_lig_T4_1; pfam09511 469607000932 Uncharacterized conserved protein [Function unknown]; Region: COG1683 469607000933 Uncharacterized conserved protein [Function unknown]; Region: COG1739 469607000934 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 469607000935 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 469607000936 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 469607000937 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 469607000938 interface (dimer of trimers) [polypeptide binding]; other site 469607000939 Substrate-binding/catalytic site; other site 469607000940 Zn-binding sites [ion binding]; other site 469607000941 Uncharacterized conserved protein [Function unknown]; Region: COG3334 469607000942 Autotransporter beta-domain; Region: Autotransporter; pfam03797 469607000943 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 469607000944 catalytic motif [active] 469607000945 Zn binding site [ion binding]; other site 469607000946 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 469607000947 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 469607000948 ligand binding site [chemical binding]; other site 469607000949 flexible hinge region; other site 469607000950 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; cl17320 469607000951 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_3; cl16254 469607000952 Predicted membrane protein, putative toxin regulator [General function prediction only]; Region: PfoR; COG3641 469607000953 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 469607000954 Protein of unknown function (DUF3798); Region: DUF3798; pfam12683 469607000955 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 469607000956 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469607000957 Walker A/P-loop; other site 469607000958 ATP binding site [chemical binding]; other site 469607000959 Q-loop/lid; other site 469607000960 ABC transporter signature motif; other site 469607000961 Walker B; other site 469607000962 D-loop; other site 469607000963 H-loop/switch region; other site 469607000964 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 469607000965 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 469607000966 TM-ABC transporter signature motif; other site 469607000967 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 469607000968 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 469607000969 TM-ABC transporter signature motif; other site 469607000970 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 469607000971 YtxH-like protein; Region: YtxH; pfam12732 469607000972 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 469607000973 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 469607000974 active site 469607000975 catalytic site [active] 469607000976 metal binding site [ion binding]; metal-binding site 469607000977 dimer interface [polypeptide binding]; other site 469607000978 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 469607000979 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 469607000980 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 469607000981 active site 469607000982 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 469607000983 FMN binding site [chemical binding]; other site 469607000984 dimer interface [polypeptide binding]; other site 469607000985 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 469607000986 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 469607000987 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 469607000988 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 469607000989 conserved cys residue [active] 469607000990 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 469607000991 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 469607000992 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 469607000993 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 469607000994 nucleotide binding site/active site [active] 469607000995 HIT family signature motif; other site 469607000996 catalytic residue [active] 469607000997 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; cd03440 469607000998 active site 2 [active] 469607000999 active site 1 [active] 469607001000 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 469607001001 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 469607001002 NAD(P) binding site [chemical binding]; other site 469607001003 lysine-2,3-aminomutase; Region: lys_2_3_AblA; TIGR03820 469607001004 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 469607001005 FeS/SAM binding site; other site 469607001006 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 469607001007 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: COG1193 469607001008 ATP-binding cassette domain of MutS homologs; Region: ABC_MutS_homologs; cd03243 469607001009 Walker A/P-loop; other site 469607001010 ATP binding site [chemical binding]; other site 469607001011 Q-loop/lid; other site 469607001012 ABC transporter signature motif; other site 469607001013 Walker B; other site 469607001014 D-loop; other site 469607001015 H-loop/switch region; other site 469607001016 D-Lysine 5,6-aminomutase alpha subunit; Region: Lys-AminoMut_A; pfam09043 469607001017 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 469607001018 B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase...; Region: B12-binding; cd02067 469607001019 B12 binding site [chemical binding]; other site 469607001020 cobalt ligand [ion binding]; other site 469607001021 Lysine efflux permease [General function prediction only]; Region: COG1279 469607001022 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 469607001023 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 469607001024 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 469607001025 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 469607001026 Coenzyme B12-dependent glutamate mutase epsilon subunit-like family; contains proteins similar to Clostridium cochlearium glutamate mutase (Glm) and Streptomyces tendae Tu901 NikV. Glm catalyzes a carbon-skeleton rearrangement of L-glutamate to...; Region: Glm_e; cd00245 469607001027 substrate binding site [chemical binding]; other site 469607001028 B12 cofactor binding site [chemical binding]; other site 469607001029 heterodimer (sigma-epsilon) interface [polypeptide binding]; other site 469607001030 homodimer (epsilon-epsilon) interface [polypeptide binding]; other site 469607001031 MutL protein; Region: MutL; pfam13941 469607001032 B12 binding domain of glutamate mutase (Glm). Glutamate mutase catalysis the conversion of (S)-glutamate with (2S,3S)-3-methylaspartate. The rearrangement reaction is initiated by the extraction of a hydrogen from the protein-bound substrate by a 5'...; Region: Glm_B12_BD; cd02072 469607001033 B12 binding site [chemical binding]; other site 469607001034 heterodimer interface [polypeptide binding]; other site 469607001035 cobalt ligand [ion binding]; other site 469607001036 ribonuclease PH; Reviewed; Region: rph; PRK00173 469607001037 Ribonuclease PH; Region: RNase_PH_bact; cd11362 469607001038 hexamer interface [polypeptide binding]; other site 469607001039 active site 469607001040 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 469607001041 active site 469607001042 dimerization interface [polypeptide binding]; other site 469607001043 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07204 469607001044 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 469607001045 dimer interface [polypeptide binding]; other site 469607001046 active site 469607001047 CoA binding pocket [chemical binding]; other site 469607001048 putative adenylate-forming enzyme; Region: aden_form_hyp; TIGR02304 469607001049 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 469607001050 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 469607001051 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 469607001052 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 469607001053 NAD(P) binding site [chemical binding]; other site 469607001054 active site 469607001055 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 469607001056 Glycosyl transferase family 21; Region: Glyco_transf_21; pfam13506 469607001057 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 469607001058 classical (c) SDRs; Region: SDR_c; cd05233 469607001059 NAD(P) binding site [chemical binding]; other site 469607001060 active site 469607001061 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 469607001062 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 469607001063 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 469607001064 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 469607001065 Pyridoxal phosphate biosynthesis protein [Coenzyme metabolism]; Region: PdxA; COG1995 469607001066 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 469607001067 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 469607001068 fructuronate transporter; Provisional; Region: PRK10034; cl15264 469607001069 dihydroxyacetone kinase, phosphotransfer subunit; Region: dha_pts; TIGR02364 469607001070 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 469607001071 dihydroxyacetone kinase, phosphoprotein-dependent, L subunit; Region: dha_L_ycgS; TIGR02365 469607001072 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481 469607001073 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 469607001074 glycerol kinase; Provisional; Region: glpK; PRK00047 469607001075 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 469607001076 N- and C-terminal domain interface [polypeptide binding]; other site 469607001077 active site 469607001078 MgATP binding site [chemical binding]; other site 469607001079 catalytic site [active] 469607001080 metal binding site [ion binding]; metal-binding site 469607001081 glycerol binding site [chemical binding]; other site 469607001082 homotetramer interface [polypeptide binding]; other site 469607001083 homodimer interface [polypeptide binding]; other site 469607001084 FBP binding site [chemical binding]; other site 469607001085 protein IIAGlc interface [polypeptide binding]; other site 469607001086 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 469607001087 amphipathic channel; other site 469607001088 Asn-Pro-Ala signature motifs; other site 469607001089 Ethanolamine utilization protein EutE-like; Region: ALDH_EutE; cd07121 469607001090 putative catalytic cysteine [active] 469607001091 Domain of unknown function (DUF336); Region: DUF336; cl01249 469607001092 DNA polymerase III PolC; Validated; Region: polC; PRK00448 469607001093 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 469607001094 Hexamer/Pentamer interface [polypeptide binding]; other site 469607001095 central pore; other site 469607001096 Flavoprotein; Region: Flavoprotein; cl08021 469607001097 ethanolamine utilization protein; Region: eut_hyp; TIGR02536 469607001098 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 469607001099 Propanediol utilisation protein PduL; Region: PduL; pfam06130 469607001100 Propanediol utilisation protein PduL; Region: PduL; pfam06130 469607001101 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 469607001102 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 469607001103 Hexamer interface [polypeptide binding]; other site 469607001104 Hexagonal pore residue; other site 469607001105 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 469607001106 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 469607001107 Hexamer interface [polypeptide binding]; other site 469607001108 Hexagonal pore residue; other site 469607001109 Dehydratase medium subunit; Region: Dehydratase_MU; pfam02288 469607001110 Diol dehydratase reactivase ATPase-like domain; Region: DDR; pfam08841 469607001111 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 469607001112 Dehydratase small subunit; Region: Dehydratase_SU; pfam02287 469607001113 propanediol dehydratase medium subunit; Provisional; Region: pduD; PRK15042 469607001114 Propanediol dehydratase, large subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduC; COG4909 469607001115 Dehydratase large subunit. This family contains the large (alpha) subunit of B12-dependent glycerol dehydratases (GDHs) and B12-dependent diol dehydratases (DDHs). GDH is isofunctional with DDH. These enzymes can each catalyze the conversion of 1; Region: Dehydratase_LU; cd03687 469607001116 alpha-alpha subunit/dimer interface [polypeptide binding]; other site 469607001117 alpha-beta subunit interface [polypeptide binding]; other site 469607001118 alpha-gamma subunit interface [polypeptide binding]; other site 469607001119 active site 469607001120 substrate and K+ binding site; other site 469607001121 K+ binding site [ion binding]; other site 469607001122 cobalamin binding site [chemical binding]; other site 469607001123 propanediol utilization protein PduB; Provisional; Region: PRK15415 469607001124 1,2-propanediol utilization protein B (PduB), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduB_repeat1; cd07047 469607001125 putative hexamer interface [polypeptide binding]; other site 469607001126 putative hexagonal pore; other site 469607001127 1,2-propanediol utilization protein B (PduB), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduB_repeat2; cd07048 469607001128 putative hexamer interface [polypeptide binding]; other site 469607001129 putative hexagonal pore; other site 469607001130 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 469607001131 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 469607001132 active site 469607001133 NAD binding site [chemical binding]; other site 469607001134 metal binding site [ion binding]; metal-binding site 469607001135 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 469607001136 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 469607001137 dimer interface [polypeptide binding]; other site 469607001138 phosphorylation site [posttranslational modification] 469607001139 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 469607001140 ATP binding site [chemical binding]; other site 469607001141 Mg2+ binding site [ion binding]; other site 469607001142 G-X-G motif; other site 469607001143 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 469607001144 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 469607001145 active site 469607001146 phosphorylation site [posttranslational modification] 469607001147 intermolecular recognition site; other site 469607001148 dimerization interface [polypeptide binding]; other site 469607001149 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 469607001150 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 469607001151 active site 469607001152 phosphorylation site [posttranslational modification] 469607001153 intermolecular recognition site; other site 469607001154 dimerization interface [polypeptide binding]; other site 469607001155 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 469607001156 DNA binding site [nucleotide binding] 469607001157 Sensory domain found in PocR; Region: PocR; pfam10114 469607001158 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 469607001159 Protein of unknown function DUF116; Region: DUF116; cl00800 469607001160 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 469607001161 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 469607001162 TPR motif; other site 469607001163 binding surface 469607001164 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 469607001165 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 469607001166 binding surface 469607001167 TPR motif; other site 469607001168 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 469607001169 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 469607001170 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 469607001171 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 469607001172 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 469607001173 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 469607001174 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 469607001175 active site 469607001176 phosphorylation site [posttranslational modification] 469607001177 intermolecular recognition site; other site 469607001178 dimerization interface [polypeptide binding]; other site 469607001179 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 469607001180 Walker A motif; other site 469607001181 ATP binding site [chemical binding]; other site 469607001182 Walker B motif; other site 469607001183 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 469607001184 DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]; Region: DnaX; COG2812 469607001185 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 469607001186 Walker A motif; other site 469607001187 ATP binding site [chemical binding]; other site 469607001188 Walker B motif; other site 469607001189 arginine finger; other site 469607001190 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 469607001191 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 469607001192 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 469607001193 replicative DNA helicase; Region: DnaB; TIGR00665 469607001194 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 469607001195 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 469607001196 Walker A motif; other site 469607001197 ATP binding site [chemical binding]; other site 469607001198 Walker B motif; other site 469607001199 DNA binding loops [nucleotide binding] 469607001200 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 469607001201 Peptidase family U32; Region: Peptidase_U32; pfam01136 469607001202 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK14869 469607001203 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 469607001204 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 469607001205 DHHA2 domain; Region: DHHA2; pfam02833 469607001206 SAM (Sterile alpha motif ); Region: SAM_superfamily; cl15755 469607001207 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 469607001208 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 469607001209 Flavodoxin domain; Region: Flavodoxin_3; pfam12641 469607001210 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 469607001211 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 469607001212 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469607001213 Walker A/P-loop; other site 469607001214 ATP binding site [chemical binding]; other site 469607001215 Q-loop/lid; other site 469607001216 ABC transporter signature motif; other site 469607001217 Walker B; other site 469607001218 D-loop; other site 469607001219 H-loop/switch region; other site 469607001220 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 469607001221 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 469607001222 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469607001223 Walker A/P-loop; other site 469607001224 ATP binding site [chemical binding]; other site 469607001225 Q-loop/lid; other site 469607001226 ABC transporter signature motif; other site 469607001227 Walker B; other site 469607001228 D-loop; other site 469607001229 H-loop/switch region; other site 469607001230 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 469607001231 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 469607001232 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 469607001233 haemagglutination activity domain; Region: Haemagg_act; pfam05860 469607001234 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 469607001235 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 469607001236 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 469607001237 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 469607001238 A nuclease family of the HNH/ENDO VII superfamily with conserved AHH; Region: AHH; pfam14412 469607001239 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469607001240 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 469607001241 putative phosphate acyltransferase; Provisional; Region: PRK05331 469607001242 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 469607001243 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 469607001244 dimer interface [polypeptide binding]; other site 469607001245 active site 469607001246 CoA binding pocket [chemical binding]; other site 469607001247 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 469607001248 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 469607001249 acyl carrier protein; Provisional; Region: acpP; PRK00982 469607001250 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 469607001251 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 469607001252 dimer interface [polypeptide binding]; other site 469607001253 active site 469607001254 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 469607001255 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 469607001256 dimerization interface [polypeptide binding]; other site 469607001257 active site 469607001258 metal binding site [ion binding]; metal-binding site 469607001259 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 469607001260 dsRNA binding site [nucleotide binding]; other site 469607001261 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 469607001262 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 469607001263 FeS/SAM binding site; other site 469607001264 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 469607001265 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 469607001266 homodimer interface [polypeptide binding]; other site 469607001267 oligonucleotide binding site [chemical binding]; other site 469607001268 Phosphopantetheine adenylyltransferase [Coenzyme metabolism]; Region: CoaD; COG0669 469607001269 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 469607001270 active site 469607001271 (T/H)XGH motif; other site 469607001272 Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]; Region: Sms; COG1066 469607001273 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 469607001274 Walker A motif/ATP binding site; other site 469607001275 ATP binding site [chemical binding]; other site 469607001276 Walker B motif; other site 469607001277 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 469607001278 Predicted nucleic-acid-binding protein (contains the HHH domain) [General function prediction only]; Region: COG1623 469607001279 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 469607001280 DisA bacterial checkpoint controller linker region; Region: DisA-linker; pfam10635 469607001281 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 469607001282 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 469607001283 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 469607001284 FAD binding site [chemical binding]; other site 469607001285 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 469607001286 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 469607001287 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 469607001288 substrate binding pocket [chemical binding]; other site 469607001289 dimer interface [polypeptide binding]; other site 469607001290 inhibitor binding site; inhibition site 469607001291 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 469607001292 B12 binding site [chemical binding]; other site 469607001293 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 469607001294 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 469607001295 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 469607001296 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 469607001297 amidase catalytic site [active] 469607001298 Zn binding residues [ion binding]; other site 469607001299 substrate binding site [chemical binding]; other site 469607001300 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 469607001301 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 469607001302 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 469607001303 Coenzyme A binding pocket [chemical binding]; other site 469607001304 GTP-binding protein Der; Reviewed; Region: PRK00093 469607001305 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 469607001306 G1 box; other site 469607001307 GTP/Mg2+ binding site [chemical binding]; other site 469607001308 Switch I region; other site 469607001309 G2 box; other site 469607001310 Switch II region; other site 469607001311 G3 box; other site 469607001312 G4 box; other site 469607001313 G5 box; other site 469607001314 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 469607001315 G1 box; other site 469607001316 GTP/Mg2+ binding site [chemical binding]; other site 469607001317 Switch I region; other site 469607001318 G2 box; other site 469607001319 G3 box; other site 469607001320 Switch II region; other site 469607001321 G4 box; other site 469607001322 G5 box; other site 469607001323 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 469607001324 S4 RNA-binding domain; Region: S4; smart00363 469607001325 TIGR03545 family protein; Region: TIGR03545 469607001326 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 469607001327 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 469607001328 FMN binding site [chemical binding]; other site 469607001329 substrate binding site [chemical binding]; other site 469607001330 putative catalytic residue [active] 469607001331 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 469607001332 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 469607001333 Switch I; other site 469607001334 Switch II; other site 469607001335 Septum formation topological specificity factor [Cell division and chromosome partitioning]; Region: MinE; COG0851 469607001336 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 469607001337 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 469607001338 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 469607001339 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 469607001340 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 469607001341 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 469607001342 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 469607001343 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 469607001344 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 469607001345 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 469607001346 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 469607001347 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 469607001348 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 469607001349 Uncharacterized protein with conserved CXXC pairs [Function unknown]; Region: COG3862 469607001350 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 469607001351 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 469607001352 NAD binding site [chemical binding]; other site 469607001353 Predicted dehydrogenase [General function prediction only]; Region: COG0579 469607001354 hydroxyglutarate oxidase; Provisional; Region: PRK11728 469607001355 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 469607001356 Uncharacterized protein containing a Zn-ribbon (DUF2116); Region: DUF2116; cl01683 469607001357 P-loop containing region of AAA domain; Region: AAA_29; cl17516 469607001358 AAA domain; Region: AAA_21; pfam13304 469607001359 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 469607001360 putative active site [active] 469607001361 putative metal-binding site [ion binding]; other site 469607001362 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 469607001363 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 469607001364 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 469607001365 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 469607001366 catalytic residues [active] 469607001367 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 469607001368 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 469607001369 SelR domain; Region: SelR; pfam01641 469607001370 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 469607001371 active site 469607001372 phosphorylation site [posttranslational modification] 469607001373 intermolecular recognition site; other site 469607001374 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 469607001375 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 469607001376 Probable transposase; Region: OrfB_IS605; pfam01385 469607001377 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 469607001378 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 469607001379 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469607001380 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 469607001381 Cache domain; Region: Cache_1; pfam02743 469607001382 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 469607001383 dimerization interface [polypeptide binding]; other site 469607001384 Histidine kinase; Region: His_kinase; pfam06580 469607001385 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 469607001386 ATP binding site [chemical binding]; other site 469607001387 Mg2+ binding site [ion binding]; other site 469607001388 G-X-G motif; other site 469607001389 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 469607001390 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 469607001391 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 469607001392 HTH domain; Region: HTH_11; cl17392 469607001393 Autotransporter beta-domain; Region: Autotransporter; pfam03797 469607001394 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 469607001395 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_21; cd08520 469607001396 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 469607001397 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 469607001398 dimer interface [polypeptide binding]; other site 469607001399 conserved gate region; other site 469607001400 putative PBP binding loops; other site 469607001401 ABC-ATPase subunit interface; other site 469607001402 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 469607001403 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 469607001404 dimer interface [polypeptide binding]; other site 469607001405 conserved gate region; other site 469607001406 putative PBP binding loops; other site 469607001407 ABC-ATPase subunit interface; other site 469607001408 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 469607001409 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469607001410 Walker A/P-loop; other site 469607001411 ATP binding site [chemical binding]; other site 469607001412 Q-loop/lid; other site 469607001413 ABC transporter signature motif; other site 469607001414 Walker B; other site 469607001415 D-loop; other site 469607001416 H-loop/switch region; other site 469607001417 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 469607001418 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469607001419 Walker A/P-loop; other site 469607001420 ATP binding site [chemical binding]; other site 469607001421 Q-loop/lid; other site 469607001422 ABC transporter signature motif; other site 469607001423 Walker B; other site 469607001424 D-loop; other site 469607001425 H-loop/switch region; other site 469607001426 Predicted transcriptional regulators [Transcription]; Region: COG1695 469607001427 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 469607001428 Transcriptional regulator PadR-like family; Region: PadR; cl17335 469607001429 putative DNA binding helix; other site 469607001430 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 469607001431 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 469607001432 S-adenosylmethionine binding site [chemical binding]; other site 469607001433 HTH domain; Region: HTH_11; cl17392 469607001434 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 469607001435 PRD domain; Region: PRD; pfam00874 469607001436 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 469607001437 active site 469607001438 P-loop; other site 469607001439 phosphorylation site [posttranslational modification] 469607001440 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 469607001441 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 469607001442 carboxyltransferase (CT) interaction site; other site 469607001443 biotinylation site [posttranslational modification]; other site 469607001444 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 469607001445 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 469607001446 Acyl CoA:acetate/3-ketoacid CoA transferase, beta subunit [Lipid metabolism]; Region: AtoA; COG2057 469607001447 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 469607001448 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 469607001449 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 469607001450 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 469607001451 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 469607001452 benzoyl-CoA reductase, bcr type, subunit B; Region: benz_CoA_red_B; TIGR02260 469607001453 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 469607001454 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 469607001455 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 469607001456 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 469607001457 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 469607001458 active site 469607001459 motif I; other site 469607001460 motif II; other site 469607001461 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 469607001462 active site 469607001463 putative DNA-binding cleft [nucleotide binding]; other site 469607001464 dimer interface [polypeptide binding]; other site 469607001465 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 469607001466 MgtC family; Region: MgtC; pfam02308 469607001467 short chain dehydrogenase; Provisional; Region: PRK06101 469607001468 classical (c) SDRs; Region: SDR_c; cd05233 469607001469 NAD(P) binding site [chemical binding]; other site 469607001470 active site 469607001471 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 469607001472 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 469607001473 non-specific DNA interactions [nucleotide binding]; other site 469607001474 DNA binding site [nucleotide binding] 469607001475 sequence specific DNA binding site [nucleotide binding]; other site 469607001476 putative cAMP binding site [chemical binding]; other site 469607001477 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 469607001478 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 469607001479 catalytic triad [active] 469607001480 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 469607001481 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 469607001482 active site 469607001483 phosphorylation site [posttranslational modification] 469607001484 intermolecular recognition site; other site 469607001485 dimerization interface [polypeptide binding]; other site 469607001486 LytTr DNA-binding domain; Region: LytTR; smart00850 469607001487 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 469607001488 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 469607001489 Histidine kinase; Region: His_kinase; pfam06580 469607001490 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 469607001491 Carbon starvation protein CstA; Region: CstA; pfam02554 469607001492 Carbon starvation protein CstA; Region: CstA; pfam02554 469607001493 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 469607001494 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 469607001495 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 469607001496 Competence protein; Region: Competence; pfam03772 469607001497 excinuclease ABC subunit B; Provisional; Region: PRK05298 469607001498 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 469607001499 ATP binding site [chemical binding]; other site 469607001500 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 469607001501 nucleotide binding region [chemical binding]; other site 469607001502 ATP-binding site [chemical binding]; other site 469607001503 Ultra-violet resistance protein B; Region: UvrB; pfam12344 469607001504 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 469607001505 Coenzyme A binding pocket [chemical binding]; other site 469607001506 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 469607001507 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 469607001508 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 469607001509 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 469607001510 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 469607001511 ATP cone domain; Region: ATP-cone; pfam03477 469607001512 Class III ribonucleotide reductase; Region: RNR_III; cd01675 469607001513 effector binding site; other site 469607001514 active site 469607001515 Zn binding site [ion binding]; other site 469607001516 glycine loop; other site 469607001517 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 469607001518 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469607001519 Walker A/P-loop; other site 469607001520 ATP binding site [chemical binding]; other site 469607001521 Q-loop/lid; other site 469607001522 ABC transporter signature motif; other site 469607001523 Walker B; other site 469607001524 D-loop; other site 469607001525 H-loop/switch region; other site 469607001526 TOBE domain; Region: TOBE_2; pfam08402 469607001527 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 469607001528 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 469607001529 dimer interface [polypeptide binding]; other site 469607001530 conserved gate region; other site 469607001531 putative PBP binding loops; other site 469607001532 ABC-ATPase subunit interface; other site 469607001533 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 469607001534 dimer interface [polypeptide binding]; other site 469607001535 conserved gate region; other site 469607001536 putative PBP binding loops; other site 469607001537 ABC-ATPase subunit interface; other site 469607001538 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 469607001539 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 469607001540 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 469607001541 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 469607001542 Walker A/P-loop; other site 469607001543 ATP binding site [chemical binding]; other site 469607001544 Q-loop/lid; other site 469607001545 ABC transporter signature motif; other site 469607001546 Walker B; other site 469607001547 D-loop; other site 469607001548 H-loop/switch region; other site 469607001549 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 469607001550 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 469607001551 ABC-ATPase subunit interface; other site 469607001552 dimer interface [polypeptide binding]; other site 469607001553 putative PBP binding regions; other site 469607001554 Metal binding protein HemV-2. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: HemV-2; cd01147 469607001555 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 469607001556 putative metal binding site [ion binding]; other site 469607001557 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 469607001558 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469607001559 Walker A/P-loop; other site 469607001560 ATP binding site [chemical binding]; other site 469607001561 Q-loop/lid; other site 469607001562 ABC transporter signature motif; other site 469607001563 Walker B; other site 469607001564 D-loop; other site 469607001565 H-loop/switch region; other site 469607001566 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469607001567 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 469607001568 Walker A/P-loop; other site 469607001569 ATP binding site [chemical binding]; other site 469607001570 Q-loop/lid; other site 469607001571 ABC transporter signature motif; other site 469607001572 Walker B; other site 469607001573 D-loop; other site 469607001574 H-loop/switch region; other site 469607001575 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 469607001576 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 469607001577 dimer interface [polypeptide binding]; other site 469607001578 conserved gate region; other site 469607001579 putative PBP binding loops; other site 469607001580 ABC-ATPase subunit interface; other site 469607001581 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 469607001582 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 469607001583 dimer interface [polypeptide binding]; other site 469607001584 conserved gate region; other site 469607001585 putative PBP binding loops; other site 469607001586 ABC-ATPase subunit interface; other site 469607001587 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 469607001588 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_19; cd08518 469607001589 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 469607001590 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 469607001591 dimer interface [polypeptide binding]; other site 469607001592 anticodon binding site; other site 469607001593 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 469607001594 homodimer interface [polypeptide binding]; other site 469607001595 motif 1; other site 469607001596 active site 469607001597 motif 2; other site 469607001598 GAD domain; Region: GAD; pfam02938 469607001599 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 469607001600 active site 469607001601 motif 3; other site 469607001602 histidyl-tRNA synthetase; Region: hisS; TIGR00442 469607001603 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 469607001604 dimer interface [polypeptide binding]; other site 469607001605 motif 1; other site 469607001606 active site 469607001607 motif 2; other site 469607001608 motif 3; other site 469607001609 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 469607001610 anticodon binding site; other site 469607001611 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]; Region: MGS1; COG2256 469607001612 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 469607001613 Walker A motif; other site 469607001614 ATP binding site [chemical binding]; other site 469607001615 Walker B motif; other site 469607001616 arginine finger; other site 469607001617 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 469607001618 Uncharacterized protein conserved in bacteria (DUF2262); Region: DUF2262; cl01757 469607001619 Family of unknown function (DUF695); Region: DUF695; pfam05117 469607001620 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 469607001621 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 469607001622 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 469607001623 PYR/PP interface [polypeptide binding]; other site 469607001624 dimer interface [polypeptide binding]; other site 469607001625 TPP binding site [chemical binding]; other site 469607001626 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 469607001627 transketolase; Reviewed; Region: PRK05899 469607001628 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 469607001629 TPP-binding site [chemical binding]; other site 469607001630 dimer interface [polypeptide binding]; other site 469607001631 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 469607001632 active site 469607001633 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 469607001634 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 469607001635 S-adenosylmethionine binding site [chemical binding]; other site 469607001636 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 469607001637 KH domain; Region: KH_4; pfam13083 469607001638 G-X-X-G motif; other site 469607001639 RimM protein, required for 16S rRNA processing [Translation, ribosomal structure and biogenesis]; Region: RimM; COG0806 469607001640 RimM N-terminal domain; Region: RimM; pfam01782 469607001641 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 469607001642 SAM-dependent RNA methyltransferase; Region: Methyltrn_RNA_4; cl17853 469607001643 polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two...; Region: polC_OBF; cd04484 469607001644 generic binding surface II; other site 469607001645 generic binding surface I; other site 469607001646 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 469607001647 active site 469607001648 exonuclease, DNA polymerase III, epsilon subunit family; Region: dnaq; TIGR00573 469607001649 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 469607001650 active site 469607001651 catalytic site [active] 469607001652 substrate binding site [chemical binding]; other site 469607001653 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 469607001654 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 469607001655 VacJ like lipoprotein; Region: VacJ; cl01073 469607001656 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 469607001657 dipeptidase, putative; Region: dipeptidaselike; TIGR01887 469607001658 active site 469607001659 metal binding site [ion binding]; metal-binding site 469607001660 Uncharacterized conserved protein [Function unknown]; Region: COG4866 469607001661 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 469607001662 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 469607001663 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 469607001664 PhoU domain; Region: PhoU; pfam01895 469607001665 heat shock protein 90; Provisional; Region: PRK05218 469607001666 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 469607001667 ATP binding site [chemical binding]; other site 469607001668 Mg2+ binding site [ion binding]; other site 469607001669 G-X-G motif; other site 469607001670 fructose-1,6-bisphosphate aldolase; Reviewed; Region: PRK05377 469607001671 catalytic residue [active] 469607001672 Zeta toxin; Region: Zeta_toxin; pfam06414 469607001673 BPG-independent PGAM N-terminus (iPGM_N); Region: iPGM_N; cl17463 469607001674 Fic family protein [Function unknown]; Region: COG3177 469607001675 Fic/DOC family; Region: Fic; pfam02661 469607001676 HipA-like C-terminal domain; Region: HipA_C; pfam07804 469607001677 multiple promoter invertase; Provisional; Region: mpi; PRK13413 469607001678 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 469607001679 catalytic residues [active] 469607001680 catalytic nucleophile [active] 469607001681 Presynaptic Site I dimer interface [polypeptide binding]; other site 469607001682 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 469607001683 Synaptic Flat tetramer interface [polypeptide binding]; other site 469607001684 Synaptic Site I dimer interface [polypeptide binding]; other site 469607001685 DNA binding site [nucleotide binding] 469607001686 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 469607001687 23S rRNA binding site [nucleotide binding]; other site 469607001688 L21 binding site [polypeptide binding]; other site 469607001689 L13 binding site [polypeptide binding]; other site 469607001690 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 469607001691 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 469607001692 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 469607001693 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 469607001694 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 469607001695 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 469607001696 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 469607001697 23S rRNA interface [nucleotide binding]; other site 469607001698 L3 interface [polypeptide binding]; other site 469607001699 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 469607001700 Uncharacterized protein conserved in bacteria (DUF2262); Region: DUF2262; pfam10020 469607001701 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 469607001702 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 469607001703 oligomer interface [polypeptide binding]; other site 469607001704 metal binding site [ion binding]; metal-binding site 469607001705 metal binding site [ion binding]; metal-binding site 469607001706 Cl binding site [ion binding]; other site 469607001707 aspartate ring; other site 469607001708 basic sphincter; other site 469607001709 putative hydrophobic gate; other site 469607001710 periplasmic entrance; other site 469607001711 Glycerol-3-phosphate responsive antiterminator (mRNA-binding) [Transcription]; Region: GlpP; COG1954 469607001712 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 469607001713 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 469607001714 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469607001715 homodimer interface [polypeptide binding]; other site 469607001716 catalytic residue [active] 469607001717 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 469607001718 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 469607001719 ligand binding site [chemical binding]; other site 469607001720 Bacterial SH3 domain; Region: SH3_3; cl17532 469607001721 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; cl01178 469607001722 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 469607001723 trimer interface [polypeptide binding]; other site 469607001724 Haemagglutinin; Region: HIM; pfam05662 469607001725 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 469607001726 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 469607001727 trimer interface [polypeptide binding]; other site 469607001728 Haemagglutinin; Region: HIM; pfam05662 469607001729 YadA-like C-terminal region; Region: YadA; pfam03895 469607001730 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 469607001731 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 469607001732 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 469607001733 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 469607001734 Nucleoside recognition; Region: Gate; pfam07670 469607001735 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 469607001736 Transposase; Region: DDE_Tnp_ISL3; pfam01610 469607001737 Predicted permease [General function prediction only]; Region: COG2056 469607001738 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 469607001739 Peptidyl-prolyl cis-trans isomerase (rotamase) - cyclophilin family [Posttranslational modification, protein turnover, chaperones]; Region: PpiB; COG0652 469607001740 active site 469607001741 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 469607001742 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 469607001743 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 469607001744 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 469607001745 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5341 469607001746 phosphatidylserine decarboxylase; Provisional; Region: PRK00723 469607001747 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 469607001748 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 469607001749 active site 469607001750 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 469607001751 putative active site [active] 469607001752 dimerization interface [polypeptide binding]; other site 469607001753 putative tRNAtyr binding site [nucleotide binding]; other site 469607001754 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 469607001755 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 469607001756 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 469607001757 EamA-like transporter family; Region: EamA; pfam00892 469607001758 S-adenosylmethionine synthetase; Validated; Region: PRK05250 469607001759 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 469607001760 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 469607001761 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 469607001762 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 469607001763 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 469607001764 dimer interface [polypeptide binding]; other site 469607001765 active site 469607001766 metal binding site [ion binding]; metal-binding site 469607001767 glutathione binding site [chemical binding]; other site 469607001768 F0F1-type ATP synthase, epsilon subunit (mitochondrial delta subunit) [Energy production and conversion]; Region: AtpC; COG0355 469607001769 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 469607001770 gamma subunit interface [polypeptide binding]; other site 469607001771 epsilon subunit interface [polypeptide binding]; other site 469607001772 LBP interface [polypeptide binding]; other site 469607001773 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 469607001774 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 469607001775 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 469607001776 alpha subunit interaction interface [polypeptide binding]; other site 469607001777 Walker A motif; other site 469607001778 ATP binding site [chemical binding]; other site 469607001779 Walker B motif; other site 469607001780 inhibitor binding site; inhibition site 469607001781 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 469607001782 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 469607001783 core domain interface [polypeptide binding]; other site 469607001784 delta subunit interface [polypeptide binding]; other site 469607001785 epsilon subunit interface [polypeptide binding]; other site 469607001786 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 469607001787 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 469607001788 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 469607001789 beta subunit interaction interface [polypeptide binding]; other site 469607001790 Walker A motif; other site 469607001791 ATP binding site [chemical binding]; other site 469607001792 Walker B motif; other site 469607001793 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 469607001794 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; COG0712 469607001795 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 469607001796 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 469607001797 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 469607001798 F0F1 ATP synthase subunit C; Provisional; Region: PRK13469 469607001799 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 469607001800 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 469607001801 ATP synthase I chain; Region: ATP_synt_I; cl09170 469607001802 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 469607001803 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 469607001804 active site 469607001805 substrate binding site [chemical binding]; other site 469607001806 metal binding site [ion binding]; metal-binding site 469607001807 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; cl01973 469607001808 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 469607001809 Adenylsuccinate lyase (ASL)_subgroup 2; Region: Adenylsuccinate_lyase_2; cd03302 469607001810 tetramer interface [polypeptide binding]; other site 469607001811 active site 469607001812 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 469607001813 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 469607001814 Coenzyme A binding pocket [chemical binding]; other site 469607001815 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 469607001816 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 469607001817 Catalytic site [active] 469607001818 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 469607001819 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 469607001820 DHH family; Region: DHH; pfam01368 469607001821 DHHA1 domain; Region: DHHA1; pfam02272 469607001822 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 469607001823 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 469607001824 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 469607001825 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469607001826 Walker A/P-loop; other site 469607001827 ATP binding site [chemical binding]; other site 469607001828 Q-loop/lid; other site 469607001829 ABC transporter signature motif; other site 469607001830 Walker B; other site 469607001831 D-loop; other site 469607001832 H-loop/switch region; other site 469607001833 TOBE domain; Region: TOBE_2; pfam08402 469607001834 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 469607001835 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 469607001836 dimer interface [polypeptide binding]; other site 469607001837 conserved gate region; other site 469607001838 putative PBP binding loops; other site 469607001839 ABC-ATPase subunit interface; other site 469607001840 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 469607001841 dimer interface [polypeptide binding]; other site 469607001842 conserved gate region; other site 469607001843 putative PBP binding loops; other site 469607001844 ABC-ATPase subunit interface; other site 469607001845 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 469607001846 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 469607001847 NAD binding site [chemical binding]; other site 469607001848 homodimer interface [polypeptide binding]; other site 469607001849 active site 469607001850 substrate binding site [chemical binding]; other site 469607001851 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 469607001852 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4878 469607001853 Uncharacterized protein conserved in bacteria (DUF2194); Region: DUF2194; pfam09960 469607001854 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4878 469607001855 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_3; cd03813 469607001856 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 469607001857 Predicted membrane protein [Function unknown]; Region: COG4267 469607001858 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 469607001859 TM1410 hypothetical-related protein; Region: DUF297; cl00997 469607001860 TM1410 hypothetical-related protein; Region: DUF297; cl00997 469607001861 Autotransporter beta-domain; Region: Autotransporter; pfam03797 469607001862 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 469607001863 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 469607001864 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 469607001865 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 469607001866 non-specific DNA binding site [nucleotide binding]; other site 469607001867 salt bridge; other site 469607001868 sequence-specific DNA binding site [nucleotide binding]; other site 469607001869 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 469607001870 Catalytic site [active] 469607001871 BRO family, N-terminal domain; Region: Bro-N; cl10591 469607001872 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 469607001873 Integrase core domain; Region: rve; pfam00665 469607001874 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 469607001875 Uncharacterized ATPase, putative transposase [General function prediction only]; Region: COG2842 469607001876 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 469607001877 Protein of unknown function (DUF1018); Region: DUF1018; cl01815 469607001878 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 469607001879 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 469607001880 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 469607001881 DNA binding residues [nucleotide binding] 469607001882 Helix-turn-helix domain; Region: HTH_17; pfam12728 469607001883 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 469607001884 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 469607001885 DNA-binding interface [nucleotide binding]; DNA binding site 469607001886 Phage terminase large subunit; Region: Terminase_3; cl12054 469607001887 Terminase-like family; Region: Terminase_6; pfam03237 469607001888 Phage portal protein; Region: Phage_portal; pfam04860 469607001889 Phage-related protein [Function unknown]; Region: COG4695; cl01923 469607001890 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 469607001891 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 469607001892 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 469607001893 Phage capsid family; Region: Phage_capsid; pfam05065 469607001894 Bacteriophage protein of unknown function (DUF646); Region: DUF646; pfam04883 469607001895 Protein of unknown function (DUF3383); Region: DUF3383; pfam11863 469607001896 Mu-like prophage protein [General function prediction only]; Region: COG3941 469607001897 Baseplate J-like protein; Region: Baseplate_J; cl01294 469607001898 Domain of unknown function (DUF4376); Region: DUF4376; pfam14301 469607001899 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 469607001900 Holin family; Region: Phage_holin_4; cl01989 469607001901 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 469607001902 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 469607001903 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 469607001904 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 469607001905 active site 469607001906 motif I; other site 469607001907 motif II; other site 469607001908 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 469607001909 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 469607001910 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 469607001911 FeS/SAM binding site; other site 469607001912 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 469607001913 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 469607001914 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 469607001915 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 469607001916 putative active site [active] 469607001917 putative metal binding site [ion binding]; other site 469607001918 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 469607001919 binding surface 469607001920 TPR motif; other site 469607001921 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 469607001922 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 469607001923 EamA-like transporter family; Region: EamA; pfam00892 469607001924 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 469607001925 The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold; Region: PBP2_Ylib_like; cd08499 469607001926 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 469607001927 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 469607001928 dimer interface [polypeptide binding]; other site 469607001929 conserved gate region; other site 469607001930 putative PBP binding loops; other site 469607001931 ABC-ATPase subunit interface; other site 469607001932 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 469607001933 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 469607001934 dimer interface [polypeptide binding]; other site 469607001935 conserved gate region; other site 469607001936 putative PBP binding loops; other site 469607001937 ABC-ATPase subunit interface; other site 469607001938 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 469607001939 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469607001940 Walker A/P-loop; other site 469607001941 ATP binding site [chemical binding]; other site 469607001942 Q-loop/lid; other site 469607001943 ABC transporter signature motif; other site 469607001944 Walker B; other site 469607001945 D-loop; other site 469607001946 H-loop/switch region; other site 469607001947 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 469607001948 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 469607001949 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469607001950 Walker A/P-loop; other site 469607001951 ATP binding site [chemical binding]; other site 469607001952 Q-loop/lid; other site 469607001953 ABC transporter signature motif; other site 469607001954 Walker B; other site 469607001955 D-loop; other site 469607001956 H-loop/switch region; other site 469607001957 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 469607001958 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 469607001959 RelB antitoxin; Region: RelB; cl01171 469607001960 Preprotein translocase subunit; Region: YajC; pfam02699 469607001961 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 469607001962 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 469607001963 active site 469607001964 metal binding site [ion binding]; metal-binding site 469607001965 peptide chain release factor 1; Validated; Region: prfA; PRK00591 469607001966 This domain is found in peptide chain release factors; Region: PCRF; smart00937 469607001967 RF-1 domain; Region: RF-1; pfam00472 469607001968 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 469607001969 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 469607001970 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 469607001971 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 469607001972 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 469607001973 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 469607001974 S-adenosylmethionine binding site [chemical binding]; other site 469607001975 Exonuclease VII small subunit [DNA replication, recombination, and repair]; Region: XseB; COG1722 469607001976 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 469607001977 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 469607001978 substrate binding pocket [chemical binding]; other site 469607001979 chain length determination region; other site 469607001980 substrate-Mg2+ binding site; other site 469607001981 catalytic residues [active] 469607001982 aspartate-rich region 1; other site 469607001983 active site lid residues [active] 469607001984 aspartate-rich region 2; other site 469607001985 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 469607001986 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 469607001987 catalytic residue [active] 469607001988 putative FPP diphosphate binding site; other site 469607001989 putative FPP binding hydrophobic cleft; other site 469607001990 dimer interface [polypeptide binding]; other site 469607001991 putative IPP diphosphate binding site; other site 469607001992 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 469607001993 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 469607001994 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 469607001995 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 469607001996 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 469607001997 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 469607001998 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 469607001999 thymidylate kinase; Provisional; Region: PRK13975; cl17243 469607002000 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 469607002001 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 469607002002 active site 469607002003 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 469607002004 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 469607002005 putative substrate binding region [chemical binding]; other site 469607002006 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 469607002007 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 469607002008 active site 469607002009 phosphorylation site [posttranslational modification] 469607002010 intermolecular recognition site; other site 469607002011 dimerization interface [polypeptide binding]; other site 469607002012 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 469607002013 Walker A motif; other site 469607002014 ATP binding site [chemical binding]; other site 469607002015 Walker B motif; other site 469607002016 arginine finger; other site 469607002017 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 469607002018 SurA N-terminal domain; Region: SurA_N_3; cl07813 469607002019 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 469607002020 CHC2 zinc finger; Region: zf-CHC2; cl17510 469607002021 DNA primase, catalytic core; Region: dnaG; TIGR01391 469607002022 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 469607002023 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 469607002024 active site 469607002025 metal binding site [ion binding]; metal-binding site 469607002026 interdomain interaction site; other site 469607002027 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 469607002028 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 469607002029 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 469607002030 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 469607002031 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 469607002032 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 469607002033 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 469607002034 DNA binding residues [nucleotide binding] 469607002035 DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Transcription]; Region: RpoD; COG0568 469607002036 Uncharacterized conserved protein [Function unknown]; Region: COG0327 469607002037 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 469607002038 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 469607002039 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 469607002040 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 469607002041 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 469607002042 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 469607002043 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 469607002044 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 469607002045 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 469607002046 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 469607002047 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 469607002048 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 469607002049 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 469607002050 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 469607002051 Methyltransferase domain; Region: Methyltransf_31; pfam13847 469607002052 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 469607002053 S-adenosylmethionine binding site [chemical binding]; other site 469607002054 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 469607002055 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 469607002056 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 469607002057 dimer interface [polypeptide binding]; other site 469607002058 ssDNA binding site [nucleotide binding]; other site 469607002059 tetramer (dimer of dimers) interface [polypeptide binding]; other site 469607002060 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 469607002061 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 469607002062 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469607002063 Walker A/P-loop; other site 469607002064 ATP binding site [chemical binding]; other site 469607002065 Q-loop/lid; other site 469607002066 ABC transporter signature motif; other site 469607002067 Walker B; other site 469607002068 D-loop; other site 469607002069 H-loop/switch region; other site 469607002070 ABC transporter; Region: ABC_tran_2; pfam12848 469607002071 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 469607002072 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 469607002073 atypical (a) SDRs, subgroup 1; Region: SDR_a1; cd05265 469607002074 putative NAD(P) binding site [chemical binding]; other site 469607002075 active site 469607002076 adenylate kinase; Reviewed; Region: adk; PRK00279 469607002077 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 469607002078 AMP-binding site [chemical binding]; other site 469607002079 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 469607002080 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 469607002081 active site 469607002082 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 469607002083 Coenzyme A binding pocket [chemical binding]; other site 469607002084 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 469607002085 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 469607002086 DKNYY family; Region: DKNYY; pfam13644 469607002087 DKNYY family; Region: DKNYY; pfam13644 469607002088 DKNYY family; Region: DKNYY; pfam13644 469607002089 DKNYY family; Region: DKNYY; pfam13644 469607002090 DKNYY family; Region: DKNYY; pfam13644 469607002091 DKNYY family; Region: DKNYY; pfam13644 469607002092 DKNYY family; Region: DKNYY; pfam13644 469607002093 DKNYY family; Region: DKNYY; pfam13644 469607002094 DKNYY family; Region: DKNYY; pfam13644 469607002095 DKNYY family; Region: DKNYY; pfam13644 469607002096 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 469607002097 rRNA binding site [nucleotide binding]; other site 469607002098 predicted 30S ribosome binding site; other site 469607002099 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 469607002100 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 469607002101 30S ribosomal protein S13; Region: bact_S13; TIGR03631 469607002102 30S ribosomal protein S11; Validated; Region: PRK05309 469607002103 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 469607002104 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 469607002105 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 469607002106 RNA binding surface [nucleotide binding]; other site 469607002107 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 469607002108 alphaNTD homodimer interface [polypeptide binding]; other site 469607002109 DNA-directed RNA polymerase, alpha subunit, bacterial and chloroplast-type; Region: rpoA; TIGR02027 469607002110 alphaNTD - beta interaction site [polypeptide binding]; other site 469607002111 alphaNTD - beta' interaction site [polypeptide binding]; other site 469607002112 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 469607002113 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 469607002114 Autotransporter beta-domain; Region: Autotransporter; pfam03797 469607002115 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 469607002116 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl17483 469607002117 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 469607002118 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 469607002119 Coenzyme A binding pocket [chemical binding]; other site 469607002120 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 469607002121 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 469607002122 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 469607002123 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 469607002124 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 469607002125 metal binding site [ion binding]; metal-binding site 469607002126 dimer interface [polypeptide binding]; other site 469607002127 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 469607002128 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 469607002129 active site 469607002130 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 469607002131 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 469607002132 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 469607002133 HlyD family secretion protein; Region: HlyD_3; pfam13437 469607002134 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 469607002135 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 469607002136 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 469607002137 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 469607002138 tandem repeat interface [polypeptide binding]; other site 469607002139 oligomer interface [polypeptide binding]; other site 469607002140 active site residues [active] 469607002141 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 469607002142 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 469607002143 tandem repeat interface [polypeptide binding]; other site 469607002144 oligomer interface [polypeptide binding]; other site 469607002145 active site residues [active] 469607002146 hypothetical protein; Validated; Region: PRK00153 469607002147 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 469607002148 putative acyl-acceptor binding pocket; other site 469607002149 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 469607002150 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 469607002151 active site 469607002152 HIGH motif; other site 469607002153 KMSKS motif; other site 469607002154 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 469607002155 tRNA binding surface [nucleotide binding]; other site 469607002156 anticodon binding site; other site 469607002157 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 469607002158 dimer interface [polypeptide binding]; other site 469607002159 putative tRNA-binding site [nucleotide binding]; other site 469607002160 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 469607002161 binding surface 469607002162 TPR motif; other site 469607002163 TPR repeat; Region: TPR_11; pfam13414 469607002164 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 469607002165 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 469607002166 active site 469607002167 tetramer interface; other site 469607002168 Glycine zipper; Region: Gly-zipper_Omp; cl17724 469607002169 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 469607002170 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 469607002171 ligand binding site [chemical binding]; other site 469607002172 Cobalamin biosynthesis protein CbiK, Co2+ chelatase [Coenzyme metabolism]; Region: CbiK; COG4822 469607002173 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_N; cd03412 469607002174 active site 469607002175 C-terminal domain interface [polypeptide binding]; other site 469607002176 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 469607002177 active site 469607002178 N-terminal domain interface [polypeptide binding]; other site 469607002179 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 469607002180 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 469607002181 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 469607002182 Ligand binding site; other site 469607002183 Putative Catalytic site; other site 469607002184 DXD motif; other site 469607002185 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 469607002186 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 469607002187 active site 469607002188 phosphorylation site [posttranslational modification] 469607002189 intermolecular recognition site; other site 469607002190 dimerization interface [polypeptide binding]; other site 469607002191 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 469607002192 DNA binding site [nucleotide binding] 469607002193 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 469607002194 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 469607002195 dimer interface [polypeptide binding]; other site 469607002196 phosphorylation site [posttranslational modification] 469607002197 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 469607002198 ATP binding site [chemical binding]; other site 469607002199 Mg2+ binding site [ion binding]; other site 469607002200 G-X-G motif; other site 469607002201 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 469607002202 putative uracil binding site [chemical binding]; other site 469607002203 putative active site [active] 469607002204 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 469607002205 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 469607002206 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 469607002207 DctM-like transporters; Region: DctM; pfam06808 469607002208 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 469607002209 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 469607002210 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 469607002211 active site 469607002212 motif I; other site 469607002213 motif II; other site 469607002214 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 469607002215 Nitroreductase-like family 3. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_3; cd02139 469607002216 putative FMN binding site [chemical binding]; other site 469607002217 Fe2+ transport protein; Region: Iron_transport; cl01377 469607002218 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 469607002219 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 469607002220 LicD family; Region: LicD; cl01378 469607002221 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 469607002222 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 469607002223 catalytic residue [active] 469607002224 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 469607002225 active site 469607002226 metal-binding site 469607002227 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 469607002228 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 469607002229 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 469607002230 putative ADP-binding pocket [chemical binding]; other site 469607002231 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 469607002232 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 469607002233 active site 469607002234 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 469607002235 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 469607002236 putative active site [active] 469607002237 putative metal binding site [ion binding]; other site 469607002238 Mannosyltransferase OCH1 and related enzymes [Cell envelope biogenesis, outer membrane]; Region: OCH1; COG3774 469607002239 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 469607002240 Lipopolysaccharide core biosynthesis protein (WaaY); Region: WaaY; cl17526 469607002241 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 469607002242 O-Antigen ligase; Region: Wzy_C; pfam04932 469607002243 putative protein phosphatase; Region: PHA02239 469607002244 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 469607002245 S-adenosylmethionine binding site [chemical binding]; other site 469607002246 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 469607002247 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 469607002248 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 469607002249 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 469607002250 active site 469607002251 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469607002252 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 469607002253 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 469607002254 ligand binding site [chemical binding]; other site 469607002255 active site 469607002256 UGI interface [polypeptide binding]; other site 469607002257 catalytic site [active] 469607002258 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 469607002259 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 469607002260 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 469607002261 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 469607002262 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 469607002263 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 469607002264 malate dehydrogenase; Provisional; Region: PRK13529 469607002265 Malic enzyme, N-terminal domain; Region: malic; pfam00390 469607002266 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 469607002267 NAD(P) binding site [chemical binding]; other site 469607002268 Membrane transport protein; Region: Mem_trans; cl09117 469607002269 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 469607002270 FMN binding site [chemical binding]; other site 469607002271 dimer interface [polypeptide binding]; other site 469607002272 Domain of unknown function (DUF1963); Region: DUF1963; cl01600 469607002273 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 469607002274 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 469607002275 dimer interface [polypeptide binding]; other site 469607002276 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469607002277 catalytic residue [active] 469607002278 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 469607002279 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 469607002280 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 469607002281 Walker A motif; other site 469607002282 ATP binding site [chemical binding]; other site 469607002283 Walker B motif; other site 469607002284 arginine finger; other site 469607002285 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 469607002286 Predicted transcriptional regulator [Transcription]; Region: COG1959 469607002287 Transcriptional regulator; Region: Rrf2; pfam02082 469607002288 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 469607002289 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 469607002290 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 469607002291 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 469607002292 FeS/SAM binding site; other site 469607002293 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 469607002294 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 469607002295 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 469607002296 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 469607002297 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 469607002298 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 469607002299 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 469607002300 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 469607002301 Deoxyxylulose-5-phosphate synthase [Coenzyme metabolism / Lipid metabolism]; Region: Dxs; COG1154 469607002302 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 469607002303 TPP-binding site; other site 469607002304 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 469607002305 PYR/PP interface [polypeptide binding]; other site 469607002306 dimer interface [polypeptide binding]; other site 469607002307 TPP binding site [chemical binding]; other site 469607002308 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 469607002309 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 469607002310 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 469607002311 Zn2+ binding site [ion binding]; other site 469607002312 Mg2+ binding site [ion binding]; other site 469607002313 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 469607002314 S4 RNA-binding domain; Region: S4; smart00363 469607002315 RNA binding surface [nucleotide binding]; other site 469607002316 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 469607002317 S-adenosylmethionine binding site [chemical binding]; other site 469607002318 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 469607002319 C-terminal peptidase (prc); Region: prc; TIGR00225 469607002320 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 469607002321 protein binding site [polypeptide binding]; other site 469607002322 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 469607002323 Catalytic dyad [active] 469607002324 Predicted methyltransferases [General function prediction only]; Region: COG0313 469607002325 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 469607002326 putative SAM binding site [chemical binding]; other site 469607002327 putative homodimer interface [polypeptide binding]; other site 469607002328 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 469607002329 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 469607002330 GTP/Mg2+ binding site [chemical binding]; other site 469607002331 G4 box; other site 469607002332 G5 box; other site 469607002333 G1 box; other site 469607002334 Switch I region; other site 469607002335 G2 box; other site 469607002336 G3 box; other site 469607002337 Switch II region; other site 469607002338 NAD synthetase; Provisional; Region: PRK13980 469607002339 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 469607002340 homodimer interface [polypeptide binding]; other site 469607002341 NAD binding pocket [chemical binding]; other site 469607002342 ATP binding pocket [chemical binding]; other site 469607002343 Mg binding site [ion binding]; other site 469607002344 active-site loop [active] 469607002345 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 469607002346 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 469607002347 active site 469607002348 DNA binding site [nucleotide binding] 469607002349 Predicted ATPases [General function prediction only]; Region: COG1106 469607002350 RloB-like protein; Region: RloB; pfam13707 469607002351 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 469607002352 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 469607002353 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 469607002354 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 469607002355 Na binding site [ion binding]; other site 469607002356 Protein of unknown function (DUF997); Region: DUF997; pfam06196 469607002357 YadA-like C-terminal region; Region: YadA; pfam03895 469607002358 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 469607002359 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 469607002360 FMN binding site [chemical binding]; other site 469607002361 active site 469607002362 catalytic residues [active] 469607002363 substrate binding site [chemical binding]; other site 469607002364 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 469607002365 MutS domain I; Region: MutS_I; pfam01624 469607002366 MutS domain II; Region: MutS_II; pfam05188 469607002367 MutS domain III; Region: MutS_III; pfam05192 469607002368 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 469607002369 Walker A/P-loop; other site 469607002370 ATP binding site [chemical binding]; other site 469607002371 Q-loop/lid; other site 469607002372 ABC transporter signature motif; other site 469607002373 Walker B; other site 469607002374 D-loop; other site 469607002375 H-loop/switch region; other site 469607002376 OstA-like protein; Region: OstA_2; pfam13100 469607002377 OstA-like protein; Region: OstA; cl00844 469607002378 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 469607002379 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 469607002380 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 469607002381 Walker A/P-loop; other site 469607002382 ATP binding site [chemical binding]; other site 469607002383 Q-loop/lid; other site 469607002384 ABC transporter signature motif; other site 469607002385 Walker B; other site 469607002386 D-loop; other site 469607002387 H-loop/switch region; other site 469607002388 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 469607002389 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 469607002390 motif 1; other site 469607002391 active site 469607002392 motif 2; other site 469607002393 motif 3; other site 469607002394 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 469607002395 DHHA1 domain; Region: DHHA1; pfam02272 469607002396 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 469607002397 protein-export membrane protein SecD; Region: secD; TIGR01129 469607002398 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 469607002399 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 469607002400 protein-export membrane protein SecF; Region: 3a0501s07; TIGR00966 469607002401 Protein export membrane protein; Region: SecD_SecF; pfam02355 469607002402 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 469607002403 S-adenosylmethionine binding site [chemical binding]; other site 469607002404 Predicted regulatory domain of a methyltransferase [General function prediction only]; Region: COG4797 469607002405 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 469607002406 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_subfamily5; cd08019 469607002407 metal binding site [ion binding]; metal-binding site 469607002408 putative dimer interface [polypeptide binding]; other site 469607002409 DNA polymerase I; Provisional; Region: PRK05755 469607002410 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 469607002411 active site 469607002412 metal binding site 1 [ion binding]; metal-binding site 469607002413 putative 5' ssDNA interaction site; other site 469607002414 metal binding site 3; metal-binding site 469607002415 metal binding site 2 [ion binding]; metal-binding site 469607002416 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 469607002417 putative DNA binding site [nucleotide binding]; other site 469607002418 putative metal binding site [ion binding]; other site 469607002419 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 469607002420 active site 469607002421 substrate binding site [chemical binding]; other site 469607002422 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 469607002423 active site 469607002424 DNA binding site [nucleotide binding] 469607002425 catalytic site [active] 469607002426 Sporulation Regulator WhiA C terminal domain; Region: HTH_WhiA; pfam02650 469607002427 FAD synthase [Coenzyme metabolism]; Region: RibF; COG0196 469607002428 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 469607002429 active site 469607002430 Riboflavin kinase; Region: Flavokinase; smart00904 469607002431 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 469607002432 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 469607002433 MviN-like protein; Region: MVIN; pfam03023 469607002434 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 469607002435 Flavoprotein; Region: Flavoprotein; pfam02441 469607002436 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 469607002437 Chromate transporter; Region: Chromate_transp; pfam02417 469607002438 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 469607002439 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 469607002440 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 469607002441 active site 469607002442 FMN binding site [chemical binding]; other site 469607002443 substrate binding site [chemical binding]; other site 469607002444 putative catalytic residue [active] 469607002445 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 469607002446 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469607002447 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 469607002448 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 469607002449 RNA binding surface [nucleotide binding]; other site 469607002450 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 469607002451 active site 469607002452 uracil binding [chemical binding]; other site 469607002453 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 469607002454 conserved hypothetical protein, PP_1857 family; Region: efp_adjacent_2; TIGR03837 469607002455 elongation factor P; Validated; Region: PRK00529 469607002456 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 469607002457 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 469607002458 RNA binding site [nucleotide binding]; other site 469607002459 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 469607002460 RNA binding site [nucleotide binding]; other site 469607002461 flavodoxin, long chain; Region: flav_long; TIGR01752 469607002462 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 469607002463 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 469607002464 putative ATP binding site [chemical binding]; other site 469607002465 putative substrate interface [chemical binding]; other site 469607002466 Protein of unknown function (DUF4241); Region: DUF4241; pfam14025 469607002467 Fic family protein [Function unknown]; Region: COG3177 469607002468 Fic/DOC family; Region: Fic; pfam02661 469607002469 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 469607002470 catalytic core [active] 469607002471 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 469607002472 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 469607002473 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 469607002474 Predicted nucleotidyltransferase [General function prediction only]; Region: COG1323 469607002475 peptidase T; Region: peptidase-T; TIGR01882 469607002476 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 469607002477 metal binding site [ion binding]; metal-binding site 469607002478 dimer interface [polypeptide binding]; other site 469607002479 uncharacterized radical SAM protein YgiQ; Region: SAM_YgiQ; TIGR03904 469607002480 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 469607002481 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 469607002482 Domain of unknown function (DUF1904); Region: DUF1904; pfam08921 469607002483 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 469607002484 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 469607002485 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 469607002486 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469607002487 Methenyl tetrahydrofolate cyclohydrolase [Amino acid transport and metabolism]; Region: COG3404 469607002488 Domain of unknown function (DUF1768); Region: DUF1768; pfam08719 469607002489 imidazolonepropionase; Validated; Region: PRK09356 469607002490 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 469607002491 active site 469607002492 Glutamate formiminotransferase [Amino acid transport and metabolism]; Region: COG3643 469607002493 Formiminotransferase domain, N-terminal subdomain; Region: FTCD_N; pfam07837 469607002494 Formiminotransferase domain; Region: FTCD; pfam02971 469607002495 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 469607002496 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 469607002497 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 469607002498 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 469607002499 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 469607002500 DEAD_2; Region: DEAD_2; pfam06733 469607002501 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 469607002502 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 469607002503 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 469607002504 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 469607002505 Zn2+ binding site [ion binding]; other site 469607002506 Mg2+ binding site [ion binding]; other site 469607002507 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 469607002508 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 469607002509 dimer interface [polypeptide binding]; other site 469607002510 ADP-ribose binding site [chemical binding]; other site 469607002511 active site 469607002512 nudix motif; other site 469607002513 metal binding site [ion binding]; metal-binding site 469607002514 Protein of unknown function (DUF1576); Region: DUF1576; pfam07613 469607002515 Protein of unknown function (DUF1576); Region: DUF1576; pfam07613 469607002516 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 469607002517 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 469607002518 active site 469607002519 homodimer interface [polypeptide binding]; other site 469607002520 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 469607002521 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 469607002522 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 469607002523 GatB domain; Region: GatB_Yqey; smart00845 469607002524 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 469607002525 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 469607002526 Asp-tRNAAsn/Glu-tRNAGln amidotransferase C subunit [Translation, ribosomal structure and biogenesis]; Region: GatC; COG0721 469607002527 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 469607002528 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 469607002529 RNA binding surface [nucleotide binding]; other site 469607002530 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 469607002531 active site 469607002532 Chromosome segregation and condensation protein B [DNA replication, recombination and repair]; Region: scpB; COG1386 469607002533 rod shape-determining protein MreB; Provisional; Region: PRK13930 469607002534 MreB and similar proteins; Region: MreB_like; cd10225 469607002535 nucleotide binding site [chemical binding]; other site 469607002536 Mg binding site [ion binding]; other site 469607002537 putative protofilament interaction site [polypeptide binding]; other site 469607002538 RodZ interaction site [polypeptide binding]; other site 469607002539 Maf-like protein; Region: Maf; pfam02545 469607002540 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 469607002541 active site 469607002542 dimer interface [polypeptide binding]; other site 469607002543 Pantothenate kinase type III (Bvg accessory factor family protein) [Transcription]; Region: COG1521 469607002544 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 469607002545 putative DNA binding site [nucleotide binding]; other site 469607002546 putative Zn2+ binding site [ion binding]; other site 469607002547 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 469607002548 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 469607002549 Ligand Binding Site [chemical binding]; other site 469607002550 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 469607002551 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 469607002552 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 469607002553 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 469607002554 intersubunit interface [polypeptide binding]; other site 469607002555 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 469607002556 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 469607002557 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 469607002558 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 469607002559 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 469607002560 ABC-ATPase subunit interface; other site 469607002561 dimer interface [polypeptide binding]; other site 469607002562 putative PBP binding regions; other site 469607002563 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 469607002564 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 469607002565 Walker A/P-loop; other site 469607002566 ATP binding site [chemical binding]; other site 469607002567 Q-loop/lid; other site 469607002568 ABC transporter signature motif; other site 469607002569 Walker B; other site 469607002570 D-loop; other site 469607002571 H-loop/switch region; other site 469607002572 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 469607002573 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 469607002574 FeS/SAM binding site; other site 469607002575 Flavodoxin domain; Region: Flavodoxin_3; pfam12641 469607002576 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469607002577 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 469607002578 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 469607002579 active site 469607002580 metal binding site [ion binding]; metal-binding site 469607002581 Asparagine synthetase (aspartate-ammonia ligase) (AsnA) catalyses the conversion of L-aspartate to L-asparagine in the presence of ATP and ammonia. AsnA is a homodimeric enzyme which is structurally similiar to the catalytic core domain of class II...; Region: AsnA; cd00645 469607002582 dimer interface [polypeptide binding]; other site 469607002583 active site 469607002584 GTP-binding protein LepA; Provisional; Region: PRK05433 469607002585 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 469607002586 G1 box; other site 469607002587 putative GEF interaction site [polypeptide binding]; other site 469607002588 GTP/Mg2+ binding site [chemical binding]; other site 469607002589 Switch I region; other site 469607002590 G2 box; other site 469607002591 G3 box; other site 469607002592 Switch II region; other site 469607002593 G4 box; other site 469607002594 G5 box; other site 469607002595 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 469607002596 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 469607002597 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 469607002598 Methyltransferase domain; Region: Methyltransf_31; pfam13847 469607002599 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 469607002600 S-adenosylmethionine binding site [chemical binding]; other site 469607002601 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 469607002602 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 469607002603 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 469607002604 Uncharacterized conserved protein [Function unknown]; Region: COG3610 469607002605 Uncharacterized conserved protein [Function unknown]; Region: COG2966 469607002606 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 469607002607 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 469607002608 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 469607002609 S-adenosylmethionine binding site [chemical binding]; other site 469607002610 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 469607002611 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 469607002612 FAD binding site [chemical binding]; other site 469607002613 homotetramer interface [polypeptide binding]; other site 469607002614 substrate binding pocket [chemical binding]; other site 469607002615 catalytic base [active] 469607002616 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 469607002617 Ligand binding site [chemical binding]; other site 469607002618 Electron transfer flavoprotein domain; Region: ETF; pfam01012 469607002619 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 469607002620 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 469607002621 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 469607002622 Uncharacterized conserved protein [Function unknown]; Region: COG1284 469607002623 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 469607002624 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 469607002625 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 469607002626 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 469607002627 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 469607002628 nucleotide binding site [chemical binding]; other site 469607002629 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 469607002630 active sites [active] 469607002631 tetramer interface [polypeptide binding]; other site 469607002632 urocanate hydratase; Provisional; Region: PRK05414 469607002633 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 469607002634 HTH domain; Region: HTH_11; pfam08279 469607002635 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 469607002636 FOG: CBS domain [General function prediction only]; Region: COG0517 469607002637 pyruvate phosphate dikinase; Provisional; Region: PRK09279 469607002638 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 469607002639 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 469607002640 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 469607002641 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 469607002642 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 469607002643 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 469607002644 Domain of unknown function (DUF3601); Region: DUF3601; pfam12208 469607002645 Domain of unknown function (DUF3601); Region: DUF3601; pfam12208 469607002646 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_3; cd07241 469607002647 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 469607002648 putative metal binding site [ion binding]; other site 469607002649 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 469607002650 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 469607002651 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 469607002652 hypothetical protein; Provisional; Region: PRK06771 469607002653 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 469607002654 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 469607002655 Predicted transcriptional regulators [Transcription]; Region: COG1733 469607002656 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 469607002657 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469607002658 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 469607002659 S1 domain; Region: S1_2; pfam13509 469607002660 S1 domain; Region: S1_2; pfam13509 469607002661 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 469607002662 RNA binding site [nucleotide binding]; other site 469607002663 Predicted acetyltransferase involved in intracellular survival and related acetyltransferases [General function prediction only]; Region: Eis; COG4552 469607002664 Acetyltransferase (GNAT) domain; Region: Acetyltransf_9; pfam13527 469607002665 Predicted branched-chain amino acid permeases (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlD; COG1687 469607002666 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 469607002667 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 469607002668 EamA-like transporter family; Region: EamA; pfam00892 469607002669 EamA-like transporter family; Region: EamA; pfam00892 469607002670 flavodoxin; Provisional; Region: PRK06242 469607002671 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 469607002672 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 469607002673 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 469607002674 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 469607002675 putative RNA binding site [nucleotide binding]; other site 469607002676 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 469607002677 S-adenosylmethionine binding site [chemical binding]; other site 469607002678 Predicted permeases [General function prediction only]; Region: COG0795 469607002679 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 469607002680 Predicted permeases [General function prediction only]; Region: COG0795 469607002681 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 469607002682 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 469607002683 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 469607002684 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 469607002685 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 469607002686 trimer interface [polypeptide binding]; other site 469607002687 active site 469607002688 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 469607002689 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 469607002690 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 469607002691 RNA binding surface [nucleotide binding]; other site 469607002692 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 469607002693 active site 469607002694 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 469607002695 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 469607002696 IHF - DNA interface [nucleotide binding]; other site 469607002697 IHF dimer interface [polypeptide binding]; other site 469607002698 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 469607002699 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 469607002700 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 469607002701 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 469607002702 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 469607002703 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 469607002704 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 469607002705 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 469607002706 substrate binding site [chemical binding]; other site 469607002707 oxyanion hole (OAH) forming residues; other site 469607002708 trimer interface [polypeptide binding]; other site 469607002709 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 469607002710 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 469607002711 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 469607002712 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 469607002713 putative acyl-acceptor binding pocket; other site 469607002714 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 469607002715 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 469607002716 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 469607002717 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 469607002718 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 469607002719 Serine kinase of the HPr protein, regulates carbohydrate metabolism [Signal transduction mechanisms]; Region: HprK; COG1493 469607002720 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 469607002721 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 469607002722 Hpr binding site; other site 469607002723 active site 469607002724 homohexamer subunit interaction site [polypeptide binding]; other site 469607002725 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 469607002726 Hpr(Ser) kinase/phosphatase; Region: hpr-ser; TIGR00679 469607002727 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 469607002728 Hpr binding site; other site 469607002729 active site 469607002730 homohexamer subunit interaction site [polypeptide binding]; other site 469607002731 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 469607002732 DHH family; Region: DHH; pfam01368 469607002733 DHHA1 domain; Region: DHHA1; pfam02272 469607002734 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 469607002735 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 469607002736 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 469607002737 Probable transposase; Region: OrfB_IS605; pfam01385 469607002738 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 469607002739 Uncharacterized conserved protein [Function unknown]; Region: COG1262 469607002740 Domain of unknown function (DUF1963); Region: DUF1963; pfam09234 469607002741 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 469607002742 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 469607002743 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 469607002744 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 469607002745 Coenzyme A binding pocket [chemical binding]; other site 469607002746 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 469607002747 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 469607002748 tyrosine decarboxylase MnfA; Region: tyr_de_CO2_Arch; TIGR03812 469607002749 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469607002750 catalytic residue [active] 469607002751 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 469607002752 WHG domain; Region: WHG; pfam13305 469607002753 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 469607002754 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 469607002755 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 469607002756 inhibitor-cofactor binding pocket; inhibition site 469607002757 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469607002758 catalytic residue [active] 469607002759 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 469607002760 AAA domain; Region: AAA_26; pfam13500 469607002761 biotin synthase; Region: bioB; TIGR00433 469607002762 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 469607002763 FeS/SAM binding site; other site 469607002764 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 469607002765 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 469607002766 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 469607002767 putative oligomer interface [polypeptide binding]; other site 469607002768 putative active site [active] 469607002769 metal binding site [ion binding]; metal-binding site 469607002770 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 469607002771 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 469607002772 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 469607002773 RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner; Region: RNase_H; cl14782 469607002774 RNA/DNA hybrid binding site [nucleotide binding]; other site 469607002775 active site 469607002776 Predicted integral membrane protein [Function unknown]; Region: COG5522 469607002777 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 469607002778 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 469607002779 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 469607002780 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 469607002781 putative active site [active] 469607002782 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 469607002783 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 469607002784 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 469607002785 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 469607002786 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 469607002787 dimerization interface [polypeptide binding]; other site 469607002788 ATP binding site [chemical binding]; other site 469607002789 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 469607002790 dimerization interface [polypeptide binding]; other site 469607002791 ATP binding site [chemical binding]; other site 469607002792 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 469607002793 putative active site [active] 469607002794 catalytic triad [active] 469607002795 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 469607002796 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 469607002797 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 469607002798 ATP binding site [chemical binding]; other site 469607002799 active site 469607002800 substrate binding site [chemical binding]; other site 469607002801 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 469607002802 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 469607002803 tetramer interface [polypeptide binding]; other site 469607002804 active site 469607002805 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 469607002806 active site 469607002807 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 469607002808 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 469607002809 dimerization interface [polypeptide binding]; other site 469607002810 putative ATP binding site [chemical binding]; other site 469607002811 Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]; Region: PurN; COG0299 469607002812 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 469607002813 active site 469607002814 substrate binding site [chemical binding]; other site 469607002815 cosubstrate binding site; other site 469607002816 catalytic site [active] 469607002817 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 469607002818 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 469607002819 purine monophosphate binding site [chemical binding]; other site 469607002820 dimer interface [polypeptide binding]; other site 469607002821 putative catalytic residues [active] 469607002822 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 469607002823 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 469607002824 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 469607002825 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 469607002826 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 469607002827 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 469607002828 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 469607002829 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 469607002830 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 469607002831 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 469607002832 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 469607002833 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 469607002834 trimer interface [polypeptide binding]; other site 469607002835 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 469607002836 trimer interface [polypeptide binding]; other site 469607002837 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 469607002838 Haemagglutinin; Region: HIM; pfam05662 469607002839 YadA-like C-terminal region; Region: YadA; pfam03895 469607002840 cobyric acid synthase; Provisional; Region: PRK00784 469607002841 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 469607002842 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 469607002843 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 469607002844 catalytic triad [active] 469607002845 Domain of unknown function (DUF4299); Region: DUF4299; pfam14132 469607002846 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 469607002847 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_10; cd07251 469607002848 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 469607002849 threonine-phosphate decarboxylase; Provisional; Region: PRK06358 469607002850 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 469607002851 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469607002852 homodimer interface [polypeptide binding]; other site 469607002853 catalytic residue [active] 469607002854 Cobyrinic acid a,c-diamide synthase [Coenzyme metabolism]; Region: CobB; COG1797 469607002855 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 469607002856 catalytic triad [active] 469607002857 Fic family protein [Function unknown]; Region: COG3177 469607002858 Fic/DOC family; Region: Fic; pfam02661 469607002859 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 469607002860 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 469607002861 Precorrin-8X methylmutase; Region: CbiC; pfam02570 469607002862 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 469607002863 Cobalamin biosynthesis protein CbiD [Coenzyme metabolism]; Region: CbiD; COG1903 469607002864 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 469607002865 active site 469607002866 putative homodimer interface [polypeptide binding]; other site 469607002867 SAM binding site [chemical binding]; other site 469607002868 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 469607002869 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 469607002870 NAD binding site [chemical binding]; other site 469607002871 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 469607002872 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 469607002873 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 469607002874 AAA domain; Region: AAA_14; pfam13173 469607002875 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 469607002876 active site 469607002877 SAM binding site [chemical binding]; other site 469607002878 homodimer interface [polypeptide binding]; other site 469607002879 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 469607002880 active site 469607002881 SAM binding site [chemical binding]; other site 469607002882 homodimer interface [polypeptide binding]; other site 469607002883 Divergent AAA domain; Region: AAA_4; pfam04326 469607002884 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 469607002885 Domain of unknown function (DUF4375); Region: DUF4375; pfam14300 469607002886 Predicted DNA-binding protein with the Helix-hairpin-helix motif [General function prediction only]; Region: COG4277 469607002887 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 469607002888 FeS/SAM binding site; other site 469607002889 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 469607002890 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 469607002891 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 469607002892 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 469607002893 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 469607002894 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 469607002895 active site 469607002896 SAM binding site [chemical binding]; other site 469607002897 homodimer interface [polypeptide binding]; other site 469607002898 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 469607002899 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 469607002900 Part of AAA domain; Region: AAA_19; pfam13245 469607002901 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 469607002902 AAA domain; Region: AAA_12; pfam13087 469607002903 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 469607002904 putative active site [active] 469607002905 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 469607002906 Cation efflux family; Region: Cation_efflux; cl00316 469607002907 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 469607002908 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 469607002909 Protein of unknown function DUF45; Region: DUF45; pfam01863 469607002910 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 469607002911 active site 469607002912 sulfite reductase, subunit C; Region: sulfite_red_C; TIGR02912 469607002913 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 469607002914 4Fe-4S binding domain; Region: Fer4_6; pfam12837 469607002915 anaerobic sulfite reductase subunit B; Provisional; Region: PRK08221 469607002916 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 469607002917 FAD binding pocket [chemical binding]; other site 469607002918 FAD binding motif [chemical binding]; other site 469607002919 phosphate binding motif [ion binding]; other site 469607002920 beta-alpha-beta structure motif; other site 469607002921 NAD binding pocket [chemical binding]; other site 469607002922 Iron coordination center [ion binding]; other site 469607002923 anaerobic sulfite reductase subunit A; Provisional; Region: PRK15055 469607002924 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 469607002925 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 469607002926 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 469607002927 ligand binding site [chemical binding]; other site 469607002928 flexible hinge region; other site 469607002929 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; cl17320 469607002930 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 469607002931 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 469607002932 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 469607002933 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 469607002934 Tetramer interface [polypeptide binding]; other site 469607002935 active site 469607002936 FMN-binding site [chemical binding]; other site 469607002937 5-enolpyruvylshikimate-3-phosphate synthase [Amino acid transport and metabolism]; Region: AroA; COG0128 469607002938 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 469607002939 hinge; other site 469607002940 active site 469607002941 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 469607002942 putative active site [active] 469607002943 putative CoA binding site [chemical binding]; other site 469607002944 nudix motif; other site 469607002945 metal binding site [ion binding]; metal-binding site 469607002946 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 469607002947 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 469607002948 active site 469607002949 nucleotide binding site [chemical binding]; other site 469607002950 HIGH motif; other site 469607002951 KMSKS motif; other site 469607002952 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 469607002953 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 469607002954 Glycoprotease family; Region: Peptidase_M22; pfam00814 469607002955 Uncharacterized conserved protein [Function unknown]; Region: COG1479 469607002956 Protein of unknown function DUF262; Region: DUF262; pfam03235 469607002957 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 469607002958 Domain of unknown function (DUF4357); Region: DUF4357; pfam14267 469607002959 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 469607002960 synthetase active site [active] 469607002961 NTP binding site [chemical binding]; other site 469607002962 metal binding site [ion binding]; metal-binding site 469607002963 SIR2-like domain; Region: SIR2_2; pfam13289 469607002964 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 469607002965 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 469607002966 putative active site [active] 469607002967 catalytic site [active] 469607002968 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 469607002969 putative active site [active] 469607002970 catalytic site [active] 469607002971 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 469607002972 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 469607002973 active site 469607002974 substrate binding site [chemical binding]; other site 469607002975 ATP binding site [chemical binding]; other site 469607002976 Peptidase family M48; Region: Peptidase_M48; cl12018 469607002977 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 469607002978 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 469607002979 haemagglutination activity domain; Region: Haemagg_act; pfam05860 469607002980 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 469607002981 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 469607002982 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 469607002983 Peptidase family M48; Region: Peptidase_M48; cl12018 469607002984 DNA polymerase III, delta subunit [DNA replication, recombination, and repair]; Region: HolA; COG1466 469607002985 Domain of unknown function (DUF4325); Region: DUF4325; pfam14213 469607002986 Heat shock protein [Posttranslational modification, protein turnover, chaperones]; Region: HslJ; COG3187 469607002987 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 469607002988 HPr interaction site; other site 469607002989 glycerol kinase (GK) interaction site [polypeptide binding]; other site 469607002990 active site 469607002991 phosphorylation site [posttranslational modification] 469607002992 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 469607002993 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 469607002994 homotrimer interface [polypeptide binding]; other site 469607002995 Walker A motif; other site 469607002996 GTP binding site [chemical binding]; other site 469607002997 Walker B motif; other site 469607002998 cobalamin synthase; Reviewed; Region: cobS; PRK00235 469607002999 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 469607003000 catalytic core [active] 469607003001 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 469607003002 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 469607003003 putative dimer interface [polypeptide binding]; other site 469607003004 active site pocket [active] 469607003005 putative cataytic base [active] 469607003006 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 469607003007 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 469607003008 MPN+ (JAMM) motif; other site 469607003009 Zinc-binding site [ion binding]; other site 469607003010 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 469607003011 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 469607003012 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 469607003013 S-adenosylmethionine binding site [chemical binding]; other site 469607003014 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 469607003015 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 469607003016 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 469607003017 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 469607003018 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 469607003019 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 469607003020 KpsF/GutQ family protein; Region: kpsF; TIGR00393 469607003021 putative active site [active] 469607003022 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 469607003023 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 469607003024 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 469607003025 Uracil-DNA glycosylase [DNA replication, recombination, and repair]; Region: COG1573 469607003026 ligand binding site [chemical binding]; other site 469607003027 active site 469607003028 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 469607003029 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 469607003030 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 469607003031 classical (c) SDRs; Region: SDR_c; cd05233 469607003032 NAD(P) binding site [chemical binding]; other site 469607003033 active site 469607003034 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 469607003035 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 469607003036 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 469607003037 RelB antitoxin; Region: RelB; cl01171 469607003038 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 469607003039 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 469607003040 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 469607003041 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 469607003042 S-adenosylmethionine binding site [chemical binding]; other site 469607003043 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 469607003044 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 469607003045 substrate-cofactor binding pocket; other site 469607003046 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469607003047 catalytic residue [active] 469607003048 Protein of unknown function (DUF4125); Region: DUF4125; pfam13526 469607003049 Tetratricopeptide repeat; Region: TPR_12; pfam13424 469607003050 Tetratricopeptide repeat; Region: TPR_10; cl17452 469607003051 Tetratricopeptide repeat; Region: TPR_12; pfam13424 469607003052 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 469607003053 binding surface 469607003054 TPR motif; other site 469607003055 Tetratricopeptide repeat; Region: TPR_12; pfam13424 469607003056 Domain of unknown function (DUF4037); Region: DUF4037; pfam13228 469607003057 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 469607003058 EamA-like transporter family; Region: EamA; pfam00892 469607003059 EamA-like transporter family; Region: EamA; pfam00892 469607003060 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469607003061 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469607003062 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 469607003063 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 469607003064 active site 469607003065 DNA binding site [nucleotide binding] 469607003066 Int/Topo IB signature motif; other site 469607003067 Stress responsive A/B Barrel Domain; Region: Dabb; pfam07876 469607003068 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 469607003069 Glutamate racemase [Cell envelope biogenesis, outer membrane]; Region: MurI; COG0796 469607003070 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 469607003071 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 469607003072 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 469607003073 ATP binding site [chemical binding]; other site 469607003074 putative Mg++ binding site [ion binding]; other site 469607003075 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 469607003076 nucleotide binding region [chemical binding]; other site 469607003077 ATP-binding site [chemical binding]; other site 469607003078 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 469607003079 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 469607003080 putative active site [active] 469607003081 Septum formation initiator; Region: DivIC; pfam04977 469607003082 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 469607003083 active site 469607003084 catalytic residues [active] 469607003085 metal binding site [ion binding]; metal-binding site 469607003086 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 469607003087 primosomal protein N' Region: priA; TIGR00595 469607003088 ATP binding site [chemical binding]; other site 469607003089 putative Mg++ binding site [ion binding]; other site 469607003090 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 469607003091 nucleotide binding region [chemical binding]; other site 469607003092 ATP-binding site [chemical binding]; other site 469607003093 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 469607003094 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 469607003095 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 469607003096 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 469607003097 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 469607003098 aspartate aminotransferase; Provisional; Region: PRK07568 469607003099 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 469607003100 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469607003101 homodimer interface [polypeptide binding]; other site 469607003102 catalytic residue [active] 469607003103 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 469607003104 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 469607003105 Part of AAA domain; Region: AAA_19; pfam13245 469607003106 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 469607003107 glycogen synthase; Provisional; Region: glgA; PRK00654 469607003108 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 469607003109 ADP-binding pocket [chemical binding]; other site 469607003110 homodimer interface [polypeptide binding]; other site 469607003111 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 469607003112 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 469607003113 ligand binding site; other site 469607003114 oligomer interface; other site 469607003115 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 469607003116 dimer interface [polypeptide binding]; other site 469607003117 N-terminal domain interface [polypeptide binding]; other site 469607003118 sulfate 1 binding site; other site 469607003119 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 469607003120 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 469607003121 ligand binding site; other site 469607003122 oligomer interface; other site 469607003123 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 469607003124 dimer interface [polypeptide binding]; other site 469607003125 N-terminal domain interface [polypeptide binding]; other site 469607003126 sulfate 1 binding site; other site 469607003127 glycogen branching enzyme; Provisional; Region: PRK12313 469607003128 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 469607003129 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 469607003130 active site 469607003131 catalytic site [active] 469607003132 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 469607003133 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 469607003134 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 469607003135 active site pocket [active] 469607003136 4-alpha-glucanotransferase; Provisional; Region: PRK14508 469607003137 Autotransporter beta-domain; Region: Autotransporter; pfam03797 469607003138 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 469607003139 Antitoxin of toxin-antitoxin stability system N-terminal; Region: RelB_N; pfam12910 469607003140 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 469607003141 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 469607003142 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 469607003143 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 469607003144 acyl-activating enzyme (AAE) consensus motif; other site 469607003145 putative AMP binding site [chemical binding]; other site 469607003146 putative active site [active] 469607003147 putative CoA binding site [chemical binding]; other site 469607003148 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 469607003149 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 469607003150 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 469607003151 putative acyl-acceptor binding pocket; other site 469607003152 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 469607003153 Ligand Binding Site [chemical binding]; other site 469607003154 TIGR00269 family protein; Region: TIGR00269 469607003155 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 469607003156 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 469607003157 active site 469607003158 motif I; other site 469607003159 motif II; other site 469607003160 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 469607003161 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 469607003162 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 469607003163 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 469607003164 active site 469607003165 dimer interface [polypeptide binding]; other site 469607003166 metal binding site [ion binding]; metal-binding site 469607003167 exopolyphosphatase; Region: exo_poly_only; TIGR03706 469607003168 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 469607003169 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 469607003170 active site 469607003171 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 469607003172 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 469607003173 tandem repeat interface [polypeptide binding]; other site 469607003174 oligomer interface [polypeptide binding]; other site 469607003175 active site residues [active] 469607003176 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 469607003177 dimer interface [polypeptide binding]; other site 469607003178 active site 469607003179 ADP-ribose binding site [chemical binding]; other site 469607003180 nudix motif; other site 469607003181 metal binding site [ion binding]; metal-binding site 469607003182 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 469607003183 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 469607003184 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 469607003185 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 469607003186 active site 469607003187 metal binding site [ion binding]; metal-binding site 469607003188 Protein of unknown function (DUF1643); Region: DUF1643; cl01787 469607003189 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 469607003190 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 469607003191 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 469607003192 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469607003193 Walker A/P-loop; other site 469607003194 ATP binding site [chemical binding]; other site 469607003195 Q-loop/lid; other site 469607003196 ABC transporter signature motif; other site 469607003197 Walker B; other site 469607003198 D-loop; other site 469607003199 H-loop/switch region; other site 469607003200 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG3694 469607003201 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469607003202 Walker A/P-loop; other site 469607003203 ATP binding site [chemical binding]; other site 469607003204 Q-loop/lid; other site 469607003205 AAA domain; Region: AAA_21; pfam13304 469607003206 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469607003207 ABC transporter signature motif; other site 469607003208 Walker B; other site 469607003209 D-loop; other site 469607003210 H-loop/switch region; other site 469607003211 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469607003212 Walker A/P-loop; other site 469607003213 ATP binding site [chemical binding]; other site 469607003214 Q-loop/lid; other site 469607003215 ABC transporter signature motif; other site 469607003216 Walker B; other site 469607003217 D-loop; other site 469607003218 H-loop/switch region; other site 469607003219 oligoendopeptidase F; Region: pepF; TIGR00181 469607003220 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 469607003221 active site 469607003222 Zn binding site [ion binding]; other site 469607003223 S-ribosylhomocysteinase; Provisional; Region: PRK02260 469607003224 uracil-xanthine permease; Region: ncs2; TIGR00801 469607003225 Predicted thioesterase [General function prediction only]; Region: COG5496 469607003226 Thiamine pyrophosphokinase; Region: TPK; cd07995 469607003227 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 469607003228 active site 469607003229 dimerization interface [polypeptide binding]; other site 469607003230 thiamine binding site [chemical binding]; other site 469607003231 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 469607003232 putative active site [active] 469607003233 putative catalytic site [active] 469607003234 putative Mg binding site IVb [ion binding]; other site 469607003235 putative phosphate binding site [ion binding]; other site 469607003236 putative DNA binding site [nucleotide binding]; other site 469607003237 putative Mg binding site IVa [ion binding]; other site 469607003238 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 469607003239 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 469607003240 motif II; other site 469607003241 Predicted transcriptional regulator [Transcription]; Region: COG1959 469607003242 Transcriptional regulator; Region: Rrf2; pfam02082 469607003243 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 469607003244 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 469607003245 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 469607003246 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 469607003247 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 469607003248 active site 469607003249 multimer interface [polypeptide binding]; other site 469607003250 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 469607003251 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 469607003252 DNA-binding site [nucleotide binding]; DNA binding site 469607003253 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 469607003254 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469607003255 homodimer interface [polypeptide binding]; other site 469607003256 catalytic residue [active] 469607003257 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 469607003258 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 469607003259 active site 469607003260 trimer interface [polypeptide binding]; other site 469607003261 allosteric site; other site 469607003262 active site lid [active] 469607003263 hexamer (dimer of trimers) interface [polypeptide binding]; other site 469607003264 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 469607003265 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 469607003266 FeS/SAM binding site; other site 469607003267 Formate/nitrite family of transporters [Inorganic ion transport and metabolism]; Region: FocA; COG2116 469607003268 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 469607003269 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 469607003270 Probable transposase; Region: OrfB_IS605; pfam01385 469607003271 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 469607003272 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 469607003273 Zn2+ binding site [ion binding]; other site 469607003274 Mg2+ binding site [ion binding]; other site 469607003275 Exoribonuclease R [Transcription]; Region: VacB; COG0557 469607003276 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 469607003277 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 469607003278 RNB domain; Region: RNB; pfam00773 469607003279 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 469607003280 RNA binding site [nucleotide binding]; other site 469607003281 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 469607003282 SmpB-tmRNA interface; other site 469607003283 Uncharacterized conserved protein [Function unknown]; Region: COG5543 469607003284 transcription elongation factor NusA; Provisional; Region: nusA; PRK12328 469607003285 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 469607003286 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 469607003287 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 469607003288 motif 1; other site 469607003289 dimer interface [polypeptide binding]; other site 469607003290 active site 469607003291 motif 2; other site 469607003292 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 469607003293 active site 469607003294 motif 3; other site 469607003295 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 469607003296 anticodon binding site; other site 469607003297 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 469607003298 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 469607003299 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469607003300 Walker A/P-loop; other site 469607003301 ATP binding site [chemical binding]; other site 469607003302 Q-loop/lid; other site 469607003303 ABC transporter signature motif; other site 469607003304 Walker B; other site 469607003305 D-loop; other site 469607003306 H-loop/switch region; other site 469607003307 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 469607003308 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 469607003309 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469607003310 Walker A/P-loop; other site 469607003311 ATP binding site [chemical binding]; other site 469607003312 Q-loop/lid; other site 469607003313 ABC transporter signature motif; other site 469607003314 Walker B; other site 469607003315 D-loop; other site 469607003316 H-loop/switch region; other site 469607003317 DNA polymerase sliding clamp subunit (PCNA homolog) [DNA replication, recombination, and repair]; Region: DnaN; COG0592 469607003318 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 469607003319 putative DNA binding surface [nucleotide binding]; other site 469607003320 dimer interface [polypeptide binding]; other site 469607003321 beta-clamp/clamp loader binding surface; other site 469607003322 beta-clamp/translesion DNA polymerase binding surface; other site 469607003323 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 469607003324 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 469607003325 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 469607003326 Mechanosensitive ion channel; Region: MS_channel; pfam00924 469607003327 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 469607003328 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 469607003329 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 469607003330 N-glycosylase/DNA lyase; Provisional; Region: PRK01229 469607003331 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 469607003332 minor groove reading motif; other site 469607003333 helix-hairpin-helix signature motif; other site 469607003334 active site 469607003335 Predicted permeases [General function prediction only]; Region: COG0679 469607003336 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 469607003337 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 469607003338 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 469607003339 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469607003340 homodimer interface [polypeptide binding]; other site 469607003341 catalytic residue [active] 469607003342 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 469607003343 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 469607003344 G1 box; other site 469607003345 putative GEF interaction site [polypeptide binding]; other site 469607003346 GTP/Mg2+ binding site [chemical binding]; other site 469607003347 Switch I region; other site 469607003348 G2 box; other site 469607003349 G3 box; other site 469607003350 Switch II region; other site 469607003351 G4 box; other site 469607003352 G5 box; other site 469607003353 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 469607003354 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 469607003355 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 469607003356 RNA binding site [nucleotide binding]; other site 469607003357 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469607003358 CAAX protease self-immunity; Region: Abi; pfam02517 469607003359 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 469607003360 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 469607003361 active site 469607003362 SAM binding site [chemical binding]; other site 469607003363 homodimer interface [polypeptide binding]; other site 469607003364 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 469607003365 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 469607003366 active site 469607003367 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 469607003368 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; cl17708 469607003369 domain interfaces; other site 469607003370 active site 469607003371 Glutamyl-tRNA reductase [Coenzyme metabolism]; Region: HemA; COG0373 469607003372 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 469607003373 tRNA; other site 469607003374 putative tRNA binding site [nucleotide binding]; other site 469607003375 putative NADP binding site [chemical binding]; other site 469607003376 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 469607003377 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 469607003378 active site 469607003379 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 469607003380 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 469607003381 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 469607003382 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 469607003383 Phosphoglycerate kinase; Region: PGK; pfam00162 469607003384 substrate binding site [chemical binding]; other site 469607003385 hinge regions; other site 469607003386 ADP binding site [chemical binding]; other site 469607003387 catalytic site [active] 469607003388 This conserved region includes the FMN-binding site of the NqrC protein as well as the NosR and NirI regulatory proteins; Region: FMN_bind; smart00900 469607003389 FMN-binding domain; Region: FMN_bind; pfam04205 469607003390 Predicted acetyltransferase [General function prediction only]; Region: COG3981 469607003391 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 469607003392 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 469607003393 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 469607003394 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 469607003395 dimer interface [polypeptide binding]; other site 469607003396 conserved gate region; other site 469607003397 putative PBP binding loops; other site 469607003398 ABC-ATPase subunit interface; other site 469607003399 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 469607003400 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 469607003401 Walker A/P-loop; other site 469607003402 ATP binding site [chemical binding]; other site 469607003403 Q-loop/lid; other site 469607003404 ABC transporter signature motif; other site 469607003405 Walker B; other site 469607003406 D-loop; other site 469607003407 H-loop/switch region; other site 469607003408 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 469607003409 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 469607003410 formimidoylglutamase; Provisional; Region: PRK13775 469607003411 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 469607003412 putative active site [active] 469607003413 putative metal binding site [ion binding]; other site 469607003414 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 469607003415 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 469607003416 FMN binding site [chemical binding]; other site 469607003417 substrate binding site [chemical binding]; other site 469607003418 putative catalytic residue [active] 469607003419 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 469607003420 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 469607003421 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 469607003422 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 469607003423 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 469607003424 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 469607003425 Predicted membrane protein [Function unknown]; Region: COG2510 469607003426 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 469607003427 Metal binding protein TroA. These proteins have been shown to function as initial receptors in ABC transport of Zn2+ and possibly Fe3+ in many eubacterial species. The TroA proteins belong to the TroA superfamily of periplasmic metal binding proteins...; Region: TroA; cd01016 469607003428 metal binding site [ion binding]; metal-binding site 469607003429 intersubunit interface [polypeptide binding]; other site 469607003430 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 469607003431 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 469607003432 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 469607003433 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 469607003434 ABC-ATPase subunit interface; other site 469607003435 dimer interface [polypeptide binding]; other site 469607003436 putative PBP binding regions; other site 469607003437 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 469607003438 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 469607003439 ABC-ATPase subunit interface; other site 469607003440 dimer interface [polypeptide binding]; other site 469607003441 putative PBP binding regions; other site 469607003442 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 469607003443 AAA domain; Region: AAA_14; pfam13173 469607003444 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 469607003445 putative deacylase active site [active] 469607003446 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 469607003447 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 469607003448 ring oligomerisation interface [polypeptide binding]; other site 469607003449 ATP/Mg binding site [chemical binding]; other site 469607003450 stacking interactions; other site 469607003451 hinge regions; other site 469607003452 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 469607003453 oligomerisation interface [polypeptide binding]; other site 469607003454 mobile loop; other site 469607003455 roof hairpin; other site 469607003456 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 469607003457 putative active site [active] 469607003458 catalytic site [active] 469607003459 DEAD-like helicases superfamily; Region: DEXDc; smart00487 469607003460 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 469607003461 ATP binding site [chemical binding]; other site 469607003462 putative Mg++ binding site [ion binding]; other site 469607003463 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 469607003464 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 469607003465 nucleotide binding region [chemical binding]; other site 469607003466 ATP-binding site [chemical binding]; other site 469607003467 Domain of unknown function (DUF4391); Region: DUF4391; pfam14335 469607003468 Protein of unknown function DUF262; Region: DUF262; pfam03235 469607003469 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 469607003470 DNA methylase; Region: N6_N4_Mtase; pfam01555 469607003471 DNA methylase; Region: N6_N4_Mtase; pfam01555 469607003472 Restriction endonuclease [Defense mechanisms]; Region: COG3587 469607003473 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 469607003474 ATP binding site [chemical binding]; other site 469607003475 Domain of unknown function DUF87; Region: DUF87; pfam01935 469607003476 HerA helicase [Replication, recombination, and repair]; Region: COG0433 469607003477 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 469607003478 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 469607003479 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 469607003480 Predicted GTPases [General function prediction only]; Region: COG1162 469607003481 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 469607003482 RNA binding site [nucleotide binding]; other site 469607003483 homodimer interface [polypeptide binding]; other site 469607003484 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 469607003485 GTPase/Zn-binding domain interface [polypeptide binding]; other site 469607003486 GTP/Mg2+ binding site [chemical binding]; other site 469607003487 G4 box; other site 469607003488 G5 box; other site 469607003489 G1 box; other site 469607003490 Switch I region; other site 469607003491 G2 box; other site 469607003492 G3 box; other site 469607003493 Switch II region; other site 469607003494 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 469607003495 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 469607003496 substrate binding site [chemical binding]; other site 469607003497 hexamer interface [polypeptide binding]; other site 469607003498 metal binding site [ion binding]; metal-binding site 469607003499 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 469607003500 MarR family; Region: MarR; pfam01047 469607003501 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 469607003502 Domain of unknown function (DUF814); Region: DUF814; pfam05670 469607003503 PAS domain; Region: PAS; smart00091 469607003504 PAS fold; Region: PAS; pfam00989 469607003505 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 469607003506 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 469607003507 Walker A motif; other site 469607003508 ATP binding site [chemical binding]; other site 469607003509 Walker B motif; other site 469607003510 arginine finger; other site 469607003511 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 469607003512 Citrate transporter; Region: CitMHS; pfam03600 469607003513 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 469607003514 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 469607003515 hybrid cluster protein; Provisional; Region: PRK05290 469607003516 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 469607003517 ACS interaction site; other site 469607003518 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 469607003519 hybrid metal cluster; other site 469607003520 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 469607003521 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 469607003522 substrate binding pocket [chemical binding]; other site 469607003523 membrane-bound complex binding site; other site 469607003524 hinge residues; other site 469607003525 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 469607003526 amidohydrolase; Region: amidohydrolases; TIGR01891 469607003527 metal binding site [ion binding]; metal-binding site 469607003528 NAD-dependent deacetylase; Provisional; Region: PRK00481 469607003529 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 469607003530 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 469607003531 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 469607003532 propionate/acetate kinase; Provisional; Region: PRK12379 469607003533 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 469607003534 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 469607003535 dimer interface [polypeptide binding]; other site 469607003536 PYR/PP interface [polypeptide binding]; other site 469607003537 TPP binding site [chemical binding]; other site 469607003538 substrate binding site [chemical binding]; other site 469607003539 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 469607003540 Domain of unknown function; Region: EKR; smart00890 469607003541 4Fe-4S binding domain; Region: Fer4_6; pfam12837 469607003542 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 469607003543 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 469607003544 TPP-binding site [chemical binding]; other site 469607003545 dimer interface [polypeptide binding]; other site 469607003546 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 469607003547 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 469607003548 active site 469607003549 substrate-binding site [chemical binding]; other site 469607003550 metal-binding site [ion binding] 469607003551 ATP binding site [chemical binding]; other site 469607003552 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4868 469607003553 hypothetical protein; Provisional; Region: PRK13663 469607003554 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 469607003555 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 469607003556 acyl-activating enzyme (AAE) consensus motif; other site 469607003557 putative AMP binding site [chemical binding]; other site 469607003558 putative active site [active] 469607003559 putative CoA binding site [chemical binding]; other site 469607003560 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 469607003561 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 469607003562 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 469607003563 putative acyl-acceptor binding pocket; other site 469607003564 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 469607003565 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 469607003566 catalytic residues [active] 469607003567 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 469607003568 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 469607003569 ligand binding site [chemical binding]; other site 469607003570 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 469607003571 Predicted membrane protein [Function unknown]; Region: COG4907 469607003572 Predicted membrane protein [Function unknown]; Region: COG4907 469607003573 Predicted membrane protein [Function unknown]; Region: COG4907 469607003574 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 469607003575 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 469607003576 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 469607003577 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 469607003578 Walker A/P-loop; other site 469607003579 ATP binding site [chemical binding]; other site 469607003580 Q-loop/lid; other site 469607003581 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 469607003582 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 469607003583 Q-loop/lid; other site 469607003584 ABC transporter signature motif; other site 469607003585 Walker B; other site 469607003586 D-loop; other site 469607003587 H-loop/switch region; other site 469607003588 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 469607003589 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 469607003590 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 469607003591 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 469607003592 active site 469607003593 (T/H)XGH motif; other site 469607003594 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 469607003595 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 469607003596 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 469607003597 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 469607003598 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 469607003599 nucleotide binding site [chemical binding]; other site 469607003600 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 469607003601 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 469607003602 ligand binding site [chemical binding]; other site 469607003603 calcium binding site [ion binding]; other site 469607003604 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469607003605 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional; Region: PRK10982 469607003606 Walker A/P-loop; other site 469607003607 ATP binding site [chemical binding]; other site 469607003608 Q-loop/lid; other site 469607003609 ABC transporter signature motif; other site 469607003610 Walker B; other site 469607003611 D-loop; other site 469607003612 H-loop/switch region; other site 469607003613 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 469607003614 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 469607003615 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 469607003616 TM-ABC transporter signature motif; other site 469607003617 H+ Antiporter protein; Region: 2A0121; TIGR00900 469607003618 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 469607003619 tetramer (dimer of dimers) interface [polypeptide binding]; other site 469607003620 NAD binding site [chemical binding]; other site 469607003621 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 469607003622 dimer interface [polypeptide binding]; other site 469607003623 substrate binding site [chemical binding]; other site 469607003624 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 469607003625 Predicted ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG2868 469607003626 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 469607003627 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 469607003628 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 469607003629 conserved cys residue [active] 469607003630 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 469607003631 Protein of unknown function (DUF1007); Region: DUF1007; cl01487 469607003632 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 469607003633 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 469607003634 dimer interface [polypeptide binding]; other site 469607003635 conserved gate region; other site 469607003636 putative PBP binding loops; other site 469607003637 ABC-ATPase subunit interface; other site 469607003638 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 469607003639 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 469607003640 dimer interface [polypeptide binding]; other site 469607003641 conserved gate region; other site 469607003642 putative PBP binding loops; other site 469607003643 ABC-ATPase subunit interface; other site 469607003644 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 469607003645 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_3; cd08490 469607003646 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469607003647 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 469607003648 Walker A/P-loop; other site 469607003649 ATP binding site [chemical binding]; other site 469607003650 Q-loop/lid; other site 469607003651 ABC transporter signature motif; other site 469607003652 Walker B; other site 469607003653 D-loop; other site 469607003654 H-loop/switch region; other site 469607003655 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 469607003656 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 469607003657 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469607003658 Walker A/P-loop; other site 469607003659 ATP binding site [chemical binding]; other site 469607003660 Q-loop/lid; other site 469607003661 ABC transporter signature motif; other site 469607003662 Walker B; other site 469607003663 D-loop; other site 469607003664 H-loop/switch region; other site 469607003665 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 469607003666 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 469607003667 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 469607003668 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 469607003669 Holliday junction resolvasome, DNA-binding subunit [DNA replication, recombination, and repair]; Region: RuvA; COG0632 469607003670 RuvA N terminal domain; Region: RuvA_N; pfam01330 469607003671 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 469607003672 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 469607003673 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 469607003674 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 469607003675 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 469607003676 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 469607003677 RNA:NAD 2'-phosphotransferase [Translation, ribosomal structure and biogenesis]; Region: KptA; COG1859 469607003678 RNA 2'-phosphotransferase, Tpt1 / KptA family; Region: PTS_2-RNA; pfam01885 469607003679 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 469607003680 Ligand binding site; other site 469607003681 Putative Catalytic site; other site 469607003682 DXD motif; other site 469607003683 GtrA-like protein; Region: GtrA; pfam04138 469607003684 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 469607003685 Part of AAA domain; Region: AAA_19; pfam13245 469607003686 Family description; Region: UvrD_C_2; pfam13538 469607003687 Rrf2 family protein; Region: rrf2_super; TIGR00738 469607003688 Transcriptional regulator; Region: Rrf2; pfam02082 469607003689 Predicted metal-dependent enzyme [General function prediction only]; Region: COG3872 469607003690 GAF domain; Region: GAF_3; pfam13492 469607003691 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 469607003692 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 469607003693 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 469607003694 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 469607003695 GIY-YIG motif/motif A; other site 469607003696 active site 469607003697 catalytic site [active] 469607003698 putative DNA binding site [nucleotide binding]; other site 469607003699 metal binding site [ion binding]; metal-binding site 469607003700 UvrB/uvrC motif; Region: UVR; pfam02151 469607003701 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 469607003702 AAA domain; Region: AAA_22; pfam13401 469607003703 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 469607003704 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 469607003705 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 469607003706 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 469607003707 Predicted ATPases [General function prediction only]; Region: COG1106 469607003708 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469607003709 Walker A/P-loop; other site 469607003710 ATP binding site [chemical binding]; other site 469607003711 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 469607003712 DJ-1 family protein; Region: not_thiJ; TIGR01383 469607003713 conserved cys residue [active] 469607003714 Membrane protein of unknown function (DUF340); Region: DUF340; pfam03956 469607003715 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 469607003716 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 469607003717 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 469607003718 Walker A/P-loop; other site 469607003719 ATP binding site [chemical binding]; other site 469607003720 Q-loop/lid; other site 469607003721 ABC transporter signature motif; other site 469607003722 Walker B; other site 469607003723 D-loop; other site 469607003724 H-loop/switch region; other site 469607003725 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 469607003726 Ferritin-like domain; Region: Ferritin; pfam00210 469607003727 dimerization interface [polypeptide binding]; other site 469607003728 DPS ferroxidase diiron center [ion binding]; other site 469607003729 ion pore; other site 469607003730 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469607003731 Glutaredoxin-related protein [Posttranslational modification, protein turnover, chaperones]; Region: COG4545 469607003732 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 469607003733 PGAP1-like protein; Region: PGAP1; pfam07819 469607003734 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 469607003735 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 469607003736 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 469607003737 ribosome biogenesis GTPase YqeH; Region: GTPase_YqeH; TIGR03597 469607003738 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 469607003739 GTP/Mg2+ binding site [chemical binding]; other site 469607003740 G4 box; other site 469607003741 G5 box; other site 469607003742 G1 box; other site 469607003743 Switch I region; other site 469607003744 G2 box; other site 469607003745 G3 box; other site 469607003746 Switch II region; other site 469607003747 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 469607003748 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 469607003749 active site 469607003750 Int/Topo IB signature motif; other site 469607003751 DNA binding site [nucleotide binding] 469607003752 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 469607003753 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 469607003754 Glucose inhibited division protein A; Region: GIDA; pfam01134 469607003755 NAD binding site [chemical binding]; other site 469607003756 DNA topoisomerase I; Validated; Region: PRK06599 469607003757 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 469607003758 active site 469607003759 interdomain interaction site; other site 469607003760 putative metal-binding site [ion binding]; other site 469607003761 nucleotide binding site [chemical binding]; other site 469607003762 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 469607003763 domain I; other site 469607003764 DNA binding groove [nucleotide binding] 469607003765 phosphate binding site [ion binding]; other site 469607003766 domain II; other site 469607003767 domain III; other site 469607003768 nucleotide binding site [chemical binding]; other site 469607003769 catalytic site [active] 469607003770 domain IV; other site 469607003771 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 469607003772 DNA protecting protein DprA; Region: dprA; TIGR00732 469607003773 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 469607003774 Exonuclease VII, large subunit [DNA replication, recombination, and repair]; Region: XseA; COG1570 469607003775 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 469607003776 generic binding surface I; other site 469607003777 generic binding surface II; other site 469607003778 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 469607003779 TPR motif; other site 469607003780 binding surface 469607003781 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 469607003782 binding surface 469607003783 TPR motif; other site 469607003784 TPR repeat; Region: TPR_11; pfam13414 469607003785 Protein of unknown function (DUF3100); Region: DUF3100; pfam11299 469607003786 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 469607003787 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 469607003788 metal binding site [ion binding]; metal-binding site 469607003789 dimer interface [polypeptide binding]; other site 469607003790 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 469607003791 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 469607003792 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4884 469607003793 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 469607003794 Alba; Region: Alba; cl00682 469607003795 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 469607003796 catalytic residue [active] 469607003797 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 469607003798 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 469607003799 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 469607003800 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 469607003801 dimer interface [polypeptide binding]; other site 469607003802 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469607003803 catalytic residue [active] 469607003804 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 469607003805 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 469607003806 ligand binding site [chemical binding]; other site 469607003807 Domain of unknown function (DUF4353); Region: DUF4353; pfam14262 469607003808 Autotransporter beta-domain; Region: Autotransporter; pfam03797 469607003809 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 469607003810 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 469607003811 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 469607003812 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 469607003813 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 469607003814 Type II secretory pathway, pullulanase PulA and related glycosidases [Carbohydrate transport and metabolism]; Region: PulA; COG1523 469607003815 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 469607003816 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 469607003817 active site 469607003818 catalytic site [active] 469607003819 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 469607003820 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 469607003821 substrate binding pocket [chemical binding]; other site 469607003822 membrane-bound complex binding site; other site 469607003823 hinge residues; other site 469607003824 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 469607003825 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 469607003826 Walker A/P-loop; other site 469607003827 ATP binding site [chemical binding]; other site 469607003828 Q-loop/lid; other site 469607003829 ABC transporter signature motif; other site 469607003830 Walker B; other site 469607003831 D-loop; other site 469607003832 H-loop/switch region; other site 469607003833 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 469607003834 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 469607003835 dimer interface [polypeptide binding]; other site 469607003836 conserved gate region; other site 469607003837 putative PBP binding loops; other site 469607003838 ABC-ATPase subunit interface; other site 469607003839 trifunctional thioredoxin/methionine sulfoxide reductase A/B protein; Provisional; Region: PRK14018 469607003840 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 469607003841 catalytic residues [active] 469607003842 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 469607003843 methionine sulfoxide reductase B; Provisional; Region: PRK00222 469607003844 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 469607003845 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 469607003846 cobalt transport protein CbiM; Validated; Region: PRK08319 469607003847 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 469607003848 cobalt transport protein CbiN; Provisional; Region: PRK02898 469607003849 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 469607003850 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 469607003851 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 469607003852 Walker A/P-loop; other site 469607003853 ATP binding site [chemical binding]; other site 469607003854 Q-loop/lid; other site 469607003855 ABC transporter signature motif; other site 469607003856 Walker B; other site 469607003857 D-loop; other site 469607003858 H-loop/switch region; other site 469607003859 A new structural DNA glycosylase; Region: AlkD_like; cd06561 469607003860 active site 469607003861 Sporulation protein and related proteins [Cell division and chromosome partitioning]; Region: SpoIID; COG2385 469607003862 Stage II sporulation protein; Region: SpoIID; pfam08486 469607003863 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 469607003864 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 469607003865 Ligand binding site; other site 469607003866 oligomer interface; other site 469607003867 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 469607003868 catalytic core [active] 469607003869 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 469607003870 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 469607003871 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 469607003872 tetramer interface [polypeptide binding]; other site 469607003873 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469607003874 catalytic residue [active] 469607003875 Domain of unknown function (DUF4299); Region: DUF4299; pfam14132 469607003876 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 469607003877 IHF dimer interface [polypeptide binding]; other site 469607003878 IHF - DNA interface [nucleotide binding]; other site 469607003879 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 469607003880 binding surface 469607003881 TPR motif; other site 469607003882 TPR repeat; Region: TPR_11; pfam13414 469607003883 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 469607003884 binding surface 469607003885 TPR repeat; Region: TPR_11; pfam13414 469607003886 TPR motif; other site 469607003887 TPR repeat; Region: TPR_11; pfam13414 469607003888 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 469607003889 TPR motif; other site 469607003890 binding surface 469607003891 TPR repeat; Region: TPR_11; pfam13414 469607003892 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 469607003893 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 469607003894 Probable transposase; Region: OrfB_IS605; pfam01385 469607003895 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 469607003896 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 469607003897 TPR motif; other site 469607003898 TPR repeat; Region: TPR_11; pfam13414 469607003899 binding surface 469607003900 FeoA domain; Region: FeoA; cl00838 469607003901 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 469607003902 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 469607003903 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 469607003904 G1 box; other site 469607003905 GTP/Mg2+ binding site [chemical binding]; other site 469607003906 Switch I region; other site 469607003907 G2 box; other site 469607003908 G3 box; other site 469607003909 Switch II region; other site 469607003910 G4 box; other site 469607003911 G5 box; other site 469607003912 Nucleoside recognition; Region: Gate; pfam07670 469607003913 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 469607003914 Nucleoside recognition; Region: Gate; pfam07670 469607003915 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 469607003916 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 469607003917 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 469607003918 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 469607003919 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 469607003920 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 469607003921 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 469607003922 ADP binding site [chemical binding]; other site 469607003923 magnesium binding site [ion binding]; other site 469607003924 putative shikimate binding site; other site 469607003925 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 469607003926 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 469607003927 HflX GTPase family; Region: HflX; cd01878 469607003928 G1 box; other site 469607003929 GTP/Mg2+ binding site [chemical binding]; other site 469607003930 Switch I region; other site 469607003931 G2 box; other site 469607003932 G3 box; other site 469607003933 Switch II region; other site 469607003934 G4 box; other site 469607003935 G5 box; other site 469607003936 WYL domain; Region: WYL; pfam13280 469607003937 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 469607003938 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 469607003939 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 469607003940 HlyD family secretion protein; Region: HlyD_3; pfam13437 469607003941 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 469607003942 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 469607003943 Walker A/P-loop; other site 469607003944 ATP binding site [chemical binding]; other site 469607003945 Q-loop/lid; other site 469607003946 ABC transporter signature motif; other site 469607003947 Walker B; other site 469607003948 D-loop; other site 469607003949 H-loop/switch region; other site 469607003950 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 469607003951 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 469607003952 FtsX-like permease family; Region: FtsX; pfam02687 469607003953 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 469607003954 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 469607003955 active site 469607003956 dimer interface [polypeptide binding]; other site 469607003957 Domain of unknown function (DUF386); Region: DUF386; cl01047 469607003958 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 469607003959 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 469607003960 substrate binding pocket [chemical binding]; other site 469607003961 membrane-bound complex binding site; other site 469607003962 hinge residues; other site 469607003963 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 469607003964 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 469607003965 Walker A/P-loop; other site 469607003966 ATP binding site [chemical binding]; other site 469607003967 Q-loop/lid; other site 469607003968 ABC transporter signature motif; other site 469607003969 Walker B; other site 469607003970 D-loop; other site 469607003971 H-loop/switch region; other site 469607003972 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 469607003973 dimer interface [polypeptide binding]; other site 469607003974 conserved gate region; other site 469607003975 putative PBP binding loops; other site 469607003976 ABC-ATPase subunit interface; other site 469607003977 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 469607003978 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 469607003979 dimer interface [polypeptide binding]; other site 469607003980 conserved gate region; other site 469607003981 putative PBP binding loops; other site 469607003982 ABC-ATPase subunit interface; other site 469607003983 Predicted flavin-nucleotide-binding protein structurally related to pyridoxine 5'-phosphate oxidase [General function prediction only]; Region: COG3576 469607003984 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 469607003985 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 469607003986 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 469607003987 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 469607003988 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 469607003989 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469607003990 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 469607003991 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 469607003992 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 469607003993 Walker A/P-loop; other site 469607003994 ATP binding site [chemical binding]; other site 469607003995 Q-loop/lid; other site 469607003996 ABC transporter signature motif; other site 469607003997 Walker B; other site 469607003998 D-loop; other site 469607003999 H-loop/switch region; other site 469607004000 Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]; Region: LpxB; COG0763 469607004001 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 469607004002 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3494 469607004003 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 469607004004 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 469607004005 active site 469607004006 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 469607004007 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 469607004008 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; COG0774 469607004009 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 469607004010 Part of AAA domain; Region: AAA_19; pfam13245 469607004011 Family description; Region: UvrD_C_2; pfam13538 469607004012 Predicted transcriptional regulators [Transcription]; Region: COG1733 469607004013 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 469607004014 Sugar efflux transporter for intercellular exchange; Region: MtN3_slv; pfam03083 469607004015 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 469607004016 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 469607004017 dimerization interface [polypeptide binding]; other site 469607004018 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 469607004019 dimer interface [polypeptide binding]; other site 469607004020 phosphorylation site [posttranslational modification] 469607004021 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 469607004022 ATP binding site [chemical binding]; other site 469607004023 Mg2+ binding site [ion binding]; other site 469607004024 G-X-G motif; other site 469607004025 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 469607004026 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 469607004027 active site 469607004028 phosphorylation site [posttranslational modification] 469607004029 intermolecular recognition site; other site 469607004030 dimerization interface [polypeptide binding]; other site 469607004031 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 469607004032 DNA binding site [nucleotide binding] 469607004033 Predicted membrane protein [Function unknown]; Region: COG3212 469607004034 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 469607004035 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 469607004036 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 469607004037 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 469607004038 Walker A/P-loop; other site 469607004039 ATP binding site [chemical binding]; other site 469607004040 Q-loop/lid; other site 469607004041 ABC transporter signature motif; other site 469607004042 Walker B; other site 469607004043 D-loop; other site 469607004044 H-loop/switch region; other site 469607004045 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 469607004046 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 469607004047 FtsX-like permease family; Region: FtsX; pfam02687 469607004048 Membrane carboxypeptidase/penicillin-binding protein PbpC [Cell envelope biogenesis, outer membrane]; Region: PbpC; COG4953 469607004049 Transglycosylase; Region: Transgly; pfam00912 469607004050 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 469607004051 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 469607004052 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 469607004053 MG2 domain; Region: A2M_N; pfam01835 469607004054 Alpha-2-macroglobulin family; Region: A2M; pfam00207 469607004055 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 469607004056 surface patch; other site 469607004057 thioester region; other site 469607004058 specificity defining residues; other site 469607004059 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 469607004060 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 469607004061 ATP binding site [chemical binding]; other site 469607004062 putative Mg++ binding site [ion binding]; other site 469607004063 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 469607004064 nucleotide binding region [chemical binding]; other site 469607004065 ATP-binding site [chemical binding]; other site 469607004066 RQC domain; Region: RQC; pfam09382 469607004067 HRDC domain; Region: HRDC; pfam00570 469607004068 Domain of unknown function (DUF4253); Region: DUF4253; pfam14062 469607004069 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 469607004070 DNA protecting protein DprA; Region: dprA; TIGR00732 469607004071 AAA ATPase domain; Region: AAA_16; pfam13191 469607004072 AAA domain; Region: AAA_22; pfam13401 469607004073 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 469607004074 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 469607004075 Ligand Binding Site [chemical binding]; other site 469607004076 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 469607004077 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 469607004078 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 469607004079 catalytic residue [active] 469607004080 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 469607004081 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 469607004082 FeS/SAM binding site; other site 469607004083 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 469607004084 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 469607004085 active site 469607004086 substrate binding site [chemical binding]; other site 469607004087 metal binding site [ion binding]; metal-binding site 469607004088 conjugal transfer surface exclusion protein TraT; Provisional; Region: PRK13731 469607004089 Enterobacterial TraT complement resistance protein; Region: TraT; pfam05818 469607004090 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 469607004091 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 469607004092 metal ion-dependent adhesion site (MIDAS); other site 469607004093 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 469607004094 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 469607004095 non-specific DNA binding site [nucleotide binding]; other site 469607004096 salt bridge; other site 469607004097 sequence-specific DNA binding site [nucleotide binding]; other site 469607004098 Cupin domain; Region: Cupin_2; pfam07883 469607004099 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 469607004100 fructuronate transporter; Provisional; Region: PRK10034; cl15264 469607004101 D-Serine dehydratase is a pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of L- or D-serine to pyruvate and ammonia. D-serine dehydratase serves as a detoxifying enzyme in most E. coli strains where D-serine is a competitive...; Region: D-Ser-dehyd; cd06447 469607004102 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 469607004103 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 469607004104 catalytic residue [active] 469607004105 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 469607004106 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 469607004107 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 469607004108 catalytic residue [active] 469607004109 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 469607004110 UGMP family protein; Validated; Region: PRK09604 469607004111 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 469607004112 nucleotide binding site [chemical binding]; other site 469607004113 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 469607004114 RecX family; Region: RecX; cl00936 469607004115 recombinase A; Provisional; Region: recA; PRK09354 469607004116 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 469607004117 hexamer interface [polypeptide binding]; other site 469607004118 Walker A motif; other site 469607004119 ATP binding site [chemical binding]; other site 469607004120 Walker B motif; other site 469607004121 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 469607004122 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 469607004123 putative active site [active] 469607004124 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 469607004125 active site 469607004126 ATP binding site [chemical binding]; other site 469607004127 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 469607004128 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 469607004129 putative active site [active] 469607004130 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 469607004131 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 469607004132 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 469607004133 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 469607004134 putative metal binding site; other site 469607004135 Putative catalytic NodB homology domain of a hypothetical protein Ecf1 from Escherichia coli and similar proteins; Region: CE4_Ecf1_like_5s; cd10969 469607004136 putative active site [active] 469607004137 putative metal binding site [ion binding]; other site 469607004138 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 469607004139 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 469607004140 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 469607004141 inhibitor-cofactor binding pocket; inhibition site 469607004142 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469607004143 catalytic residue [active] 469607004144 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 469607004145 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 469607004146 Preprotein translocase SecG subunit; Region: SecG; pfam03840 469607004147 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 469607004148 DNA polymerase sliding clamp subunit (PCNA homolog) [DNA replication, recombination, and repair]; Region: DnaN; COG0592 469607004149 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 469607004150 putative DNA binding surface [nucleotide binding]; other site 469607004151 dimer interface [polypeptide binding]; other site 469607004152 beta-clamp/clamp loader binding surface; other site 469607004153 beta-clamp/translesion DNA polymerase binding surface; other site 469607004154 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 469607004155 Predicted membrane protein [Function unknown]; Region: COG2855 469607004156 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 469607004157 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 469607004158 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 469607004159 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 469607004160 DNA-binding site [nucleotide binding]; DNA binding site 469607004161 RNA-binding motif; other site 469607004162 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 469607004163 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 469607004164 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 469607004165 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 469607004166 FeS/SAM binding site; other site 469607004167 Transglycosylase; Region: Transgly; pfam00912 469607004168 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 469607004169 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 469607004170 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 469607004171 Part of AAA domain; Region: AAA_19; pfam13245 469607004172 Family description; Region: UvrD_C_2; pfam13538 469607004173 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 469607004174 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 469607004175 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 469607004176 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 469607004177 active site 469607004178 metal binding site [ion binding]; metal-binding site 469607004179 DNA binding site [nucleotide binding] 469607004180 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469607004181 AAA domain; Region: AAA_23; pfam13476 469607004182 Walker A/P-loop; other site 469607004183 ATP binding site [chemical binding]; other site 469607004184 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 469607004185 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469607004186 Q-loop/lid; other site 469607004187 ABC transporter signature motif; other site 469607004188 Walker B; other site 469607004189 D-loop; other site 469607004190 H-loop/switch region; other site 469607004191 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 469607004192 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469607004193 Outer membrane efflux protein; Region: OEP; pfam02321 469607004194 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 469607004195 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 469607004196 HlyD family secretion protein; Region: HlyD_3; pfam13437 469607004197 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 469607004198 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 469607004199 flavodoxin, short chain; Region: flav_short; TIGR01753 469607004200 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 469607004201 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 469607004202 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 469607004203 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 469607004204 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 469607004205 putative ligand binding site [chemical binding]; other site 469607004206 putative NAD binding site [chemical binding]; other site 469607004207 catalytic site [active] 469607004208 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 469607004209 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 469607004210 active site 469607004211 nucleophile elbow; other site 469607004212 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 469607004213 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 469607004214 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 469607004215 active site 469607004216 HIGH motif; other site 469607004217 KMSK motif region; other site 469607004218 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 469607004219 tRNA binding surface [nucleotide binding]; other site 469607004220 anticodon binding site; other site 469607004221 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 469607004222 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 469607004223 catalytic triad [active] 469607004224 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 469607004225 Transcriptional regulator [Transcription]; Region: LysR; COG0583 469607004226 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469607004227 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 469607004228 dimerization interface [polypeptide binding]; other site 469607004229 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 469607004230 active site 469607004231 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 469607004232 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 469607004233 homodimer interface [polypeptide binding]; other site 469607004234 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469607004235 catalytic residue [active] 469607004236 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 469607004237 Arginase family; Region: Arginase; cd09989 469607004238 active site 469607004239 Mn binding site [ion binding]; other site 469607004240 oligomer interface [polypeptide binding]; other site 469607004241 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 469607004242 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 469607004243 Autotransporter beta-domain; Region: Autotransporter; smart00869 469607004244 putative acyltransferase; Provisional; Region: PRK05790 469607004245 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 469607004246 dimer interface [polypeptide binding]; other site 469607004247 active site 469607004248 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 469607004249 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 469607004250 NAD(P) binding site [chemical binding]; other site 469607004251 homotetramer interface [polypeptide binding]; other site 469607004252 homodimer interface [polypeptide binding]; other site 469607004253 active site 469607004254 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 469607004255 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 469607004256 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 469607004257 catalytic residue [active] 469607004258 Predicted membrane protein [Function unknown]; Region: COG2035 469607004259 Prolipoprotein diacylglyceryl transferase; Region: LGT; pfam01790 469607004260 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 469607004261 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 469607004262 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 469607004263 NAD(P) binding site [chemical binding]; other site 469607004264 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 469607004265 (R)-2-Hydroxyglutarate Dehydrogenase and related dehydrogenases, NAD-binding and catalytic domains; Region: HGDH_like; cd12184 469607004266 putative homodimer interface [polypeptide binding]; other site 469607004267 putative ligand binding site [chemical binding]; other site 469607004268 putative NAD binding site [chemical binding]; other site 469607004269 catalytic site [active] 469607004270 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 469607004271 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 469607004272 active site 469607004273 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 469607004274 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 469607004275 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 469607004276 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 469607004277 DNA binding residues [nucleotide binding] 469607004278 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 469607004279 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 469607004280 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 469607004281 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 469607004282 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 469607004283 Peptidase family M23; Region: Peptidase_M23; pfam01551 469607004284 Transcription termination factor [Transcription]; Region: Rho; COG1158 469607004285 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 469607004286 RNA binding site [nucleotide binding]; other site 469607004287 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 469607004288 Walker A motif; other site 469607004289 ATP binding site [chemical binding]; other site 469607004290 Walker B motif; other site 469607004291 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 469607004292 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 469607004293 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 469607004294 FeS/SAM binding site; other site 469607004295 TRAM domain; Region: TRAM; pfam01938 469607004296 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 469607004297 Protein export membrane protein; Region: SecD_SecF; cl14618 469607004298 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 469607004299 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 469607004300 flavodoxin FldA; Validated; Region: PRK09267 469607004301 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 469607004302 trimer interface [polypeptide binding]; other site 469607004303 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 469607004304 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 469607004305 trimer interface [polypeptide binding]; other site 469607004306 Haemagglutinin; Region: HIM; pfam05662 469607004307 YadA-like C-terminal region; Region: YadA; pfam03895 469607004308 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 469607004309 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 469607004310 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 469607004311 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 469607004312 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 469607004313 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 469607004314 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 469607004315 dimer interface [polypeptide binding]; other site 469607004316 putative anticodon binding site; other site 469607004317 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 469607004318 motif 1; other site 469607004319 active site 469607004320 motif 2; other site 469607004321 motif 3; other site 469607004322 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 469607004323 Uncharacterized conserved protein [Function unknown]; Region: COG1576 469607004324 DNA mismatch repair enzyme (predicted ATPase) [DNA replication, recombination, and repair]; Region: MutL; COG0323 469607004325 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 469607004326 ATP binding site [chemical binding]; other site 469607004327 Mg2+ binding site [ion binding]; other site 469607004328 G-X-G motif; other site 469607004329 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 469607004330 ATP binding site [chemical binding]; other site 469607004331 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 469607004332 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 469607004333 Zn2+ binding site [ion binding]; other site 469607004334 Mg2+ binding site [ion binding]; other site 469607004335 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469607004336 A pre-toxin domain with the TG motif; Region: PT-TG; pfam14449 469607004337 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 469607004338 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 469607004339 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 469607004340 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 469607004341 30S subunit binding site; other site 469607004342 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 469607004343 dimer interface [polypeptide binding]; other site 469607004344 active site 469607004345 Schiff base residues; other site 469607004346 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469607004347 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469607004348 Putative glycosyl hydrolase domain; Region: DUF4015; cl17870 469607004349 Rubrerythrin [Energy production and conversion]; Region: COG1592 469607004350 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 469607004351 binuclear metal center [ion binding]; other site 469607004352 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 469607004353 iron binding site [ion binding]; other site 469607004354 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 469607004355 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 469607004356 NAD(P) binding site [chemical binding]; other site 469607004357 catalytic residues [active] 469607004358 Flavin Reductases; Region: FlaRed; cl00801 469607004359 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 469607004360 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 469607004361 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 469607004362 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 469607004363 active site 469607004364 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 469607004365 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 469607004366 glutaminase active site [active] 469607004367 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 469607004368 dimer interface [polypeptide binding]; other site 469607004369 active site 469607004370 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 469607004371 dimer interface [polypeptide binding]; other site 469607004372 active site 469607004373 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 469607004374 Transposase; Region: DDE_Tnp_ISL3; pfam01610 469607004375 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 469607004376 putative active site [active] 469607004377 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 469607004378 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 469607004379 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 469607004380 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 469607004381 16S rRNA methyltransferase B; Provisional; Region: PRK14902 469607004382 NusB family; Region: NusB; pfam01029 469607004383 putative RNA binding site [nucleotide binding]; other site 469607004384 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 469607004385 S-adenosylmethionine binding site [chemical binding]; other site 469607004386 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 469607004387 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 469607004388 S-adenosylmethionine binding site [chemical binding]; other site 469607004389 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 469607004390 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 469607004391 macrolide transporter subunit MacA; Provisional; Region: PRK11578 469607004392 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 469607004393 HlyD family secretion protein; Region: HlyD_3; pfam13437 469607004394 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 469607004395 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 469607004396 Walker A/P-loop; other site 469607004397 ATP binding site [chemical binding]; other site 469607004398 Q-loop/lid; other site 469607004399 ABC transporter signature motif; other site 469607004400 Walker B; other site 469607004401 D-loop; other site 469607004402 H-loop/switch region; other site 469607004403 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 469607004404 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 469607004405 FtsX-like permease family; Region: FtsX; pfam02687 469607004406 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 469607004407 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 469607004408 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469607004409 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 469607004410 Phosphoribosyl-dephospho-CoA transferase (holo-ACP synthetase) [Coenzyme metabolism / Lipid metabolism]; Region: CitX; COG3697 469607004411 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 469607004412 Citrate lyase ligase; Region: Citrate_lyase_ligase; cd02169 469607004413 putative active site [active] 469607004414 (T/H)XGH motif; other site 469607004415 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 469607004416 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 469607004417 Predicted transcriptional regulator [Transcription]; Region: COG2378 469607004418 HTH domain; Region: HTH_11; pfam08279 469607004419 WYL domain; Region: WYL; pfam13280 469607004420 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 469607004421 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 469607004422 substrate binding pocket [chemical binding]; other site 469607004423 membrane-bound complex binding site; other site 469607004424 hinge residues; other site 469607004425 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 469607004426 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 469607004427 Walker A/P-loop; other site 469607004428 ATP binding site [chemical binding]; other site 469607004429 Q-loop/lid; other site 469607004430 ABC transporter signature motif; other site 469607004431 Walker B; other site 469607004432 D-loop; other site 469607004433 H-loop/switch region; other site 469607004434 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 469607004435 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 469607004436 dimer interface [polypeptide binding]; other site 469607004437 conserved gate region; other site 469607004438 putative PBP binding loops; other site 469607004439 ABC-ATPase subunit interface; other site 469607004440 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 469607004441 dimer interface [polypeptide binding]; other site 469607004442 conserved gate region; other site 469607004443 putative PBP binding loops; other site 469607004444 ABC-ATPase subunit interface; other site 469607004445 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 469607004446 aspartate racemase; Region: asp_race; TIGR00035 469607004447 GTPase Era; Reviewed; Region: era; PRK00089 469607004448 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 469607004449 G1 box; other site 469607004450 GTP/Mg2+ binding site [chemical binding]; other site 469607004451 Switch I region; other site 469607004452 G2 box; other site 469607004453 Switch II region; other site 469607004454 G3 box; other site 469607004455 G4 box; other site 469607004456 G5 box; other site 469607004457 KH domain; Region: KH_2; pfam07650 469607004458 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 469607004459 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 469607004460 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 469607004461 Walker A/P-loop; other site 469607004462 ATP binding site [chemical binding]; other site 469607004463 Q-loop/lid; other site 469607004464 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 469607004465 ABC transporter signature motif; other site 469607004466 Walker B; other site 469607004467 D-loop; other site 469607004468 H-loop/switch region; other site 469607004469 ATP-NAD kinase; Region: NAD_kinase; pfam01513 469607004470 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 469607004471 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 469607004472 Peptidase family M23; Region: Peptidase_M23; pfam01551 469607004473 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 469607004474 Adhesion protein FadA; Region: FadA; pfam09403 469607004475 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 469607004476 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 469607004477 Pyruvate formate lyase 1; Region: PFL1; cd01678 469607004478 coenzyme A binding site [chemical binding]; other site 469607004479 active site 469607004480 catalytic residues [active] 469607004481 glycine loop; other site 469607004482 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 469607004483 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 469607004484 FeS/SAM binding site; other site 469607004485 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 469607004486 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 469607004487 Walker A/P-loop; other site 469607004488 ATP binding site [chemical binding]; other site 469607004489 Q-loop/lid; other site 469607004490 ABC transporter signature motif; other site 469607004491 Walker B; other site 469607004492 D-loop; other site 469607004493 H-loop/switch region; other site 469607004494 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 469607004495 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 469607004496 Walker A/P-loop; other site 469607004497 ATP binding site [chemical binding]; other site 469607004498 Q-loop/lid; other site 469607004499 ABC transporter signature motif; other site 469607004500 Walker B; other site 469607004501 D-loop; other site 469607004502 H-loop/switch region; other site 469607004503 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 469607004504 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 469607004505 TM-ABC transporter signature motif; other site 469607004506 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 469607004507 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 469607004508 TM-ABC transporter signature motif; other site 469607004509 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 469607004510 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 469607004511 putative ligand binding site [chemical binding]; other site 469607004512 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 469607004513 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 469607004514 NAD(P) binding site [chemical binding]; other site 469607004515 active site 469607004516 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 469607004517 binding surface 469607004518 TPR motif; other site 469607004519 Tetratricopeptide repeat; Region: TPR_16; pfam13432 469607004520 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 469607004521 TPR motif; other site 469607004522 binding surface 469607004523 Tetratricopeptide repeat; Region: TPR_12; pfam13424 469607004524 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 469607004525 binding surface 469607004526 TPR motif; other site 469607004527 Tetratricopeptide repeat; Region: TPR_12; pfam13424 469607004528 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 469607004529 binding surface 469607004530 TPR motif; other site 469607004531 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 469607004532 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 469607004533 binding surface 469607004534 TPR motif; other site 469607004535 Tetratricopeptide repeat; Region: TPR_12; pfam13424 469607004536 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 469607004537 binding surface 469607004538 TPR motif; other site 469607004539 Tetratricopeptide repeat; Region: TPR_12; pfam13424 469607004540 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 469607004541 TPR motif; other site 469607004542 Tetratricopeptide repeat; Region: TPR_12; pfam13424 469607004543 binding surface 469607004544 Ribosomal protein L28 [Translation, ribosomal structure and biogenesis]; Region: RpmB; COG0227 469607004545 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 469607004546 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 469607004547 putative substrate binding site [chemical binding]; other site 469607004548 putative ATP binding site [chemical binding]; other site 469607004549 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 469607004550 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 469607004551 active site 469607004552 phosphorylation site [posttranslational modification] 469607004553 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 469607004554 active site 469607004555 P-loop; other site 469607004556 phosphorylation site [posttranslational modification] 469607004557 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 469607004558 GMP synthase; Reviewed; Region: guaA; PRK00074 469607004559 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 469607004560 AMP/PPi binding site [chemical binding]; other site 469607004561 candidate oxyanion hole; other site 469607004562 catalytic triad [active] 469607004563 potential glutamine specificity residues [chemical binding]; other site 469607004564 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 469607004565 ATP Binding subdomain [chemical binding]; other site 469607004566 Ligand Binding sites [chemical binding]; other site 469607004567 Dimerization subdomain; other site 469607004568 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 469607004569 FOG: CBS domain [General function prediction only]; Region: COG0517 469607004570 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 469607004571 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 469607004572 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 469607004573 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 469607004574 N-terminal putative catalytic domain of uncharacterized HKD family nucleases fused to putative helicases from the Snf2-like family; Region: PLDc_N_Snf2_like; cd09178 469607004575 PLD-like domain; Region: PLDc_2; pfam13091 469607004576 putative homodimer interface [polypeptide binding]; other site 469607004577 putative active site [active] 469607004578 catalytic site [active] 469607004579 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 469607004580 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 469607004581 ATP binding site [chemical binding]; other site 469607004582 putative Mg++ binding site [ion binding]; other site 469607004583 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 469607004584 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 469607004585 nucleotide binding region [chemical binding]; other site 469607004586 ATP-binding site [chemical binding]; other site 469607004587 Ribosomal protein S16 [Translation, ribosomal structure and biogenesis]; Region: RpsP; COG0228 469607004588 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 469607004589 Signal peptide binding domain; Region: SRP_SPB; pfam02978 469607004590 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 469607004591 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 469607004592 putative DNA-binding protein; Validated; Region: PRK00118 469607004593 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 469607004594 Transposase IS200 like; Region: Y1_Tnp; pfam01797 469607004595 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 469607004596 glutaminase A; Region: Gln_ase; TIGR03814 469607004597 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 469607004598 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 469607004599 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 469607004600 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 469607004601 metal binding site [ion binding]; metal-binding site 469607004602 Predicted membrane protein [Function unknown]; Region: COG1288 469607004603 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 469607004604 threonine dehydratase; Provisional; Region: PRK08198 469607004605 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 469607004606 tetramer interface [polypeptide binding]; other site 469607004607 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469607004608 catalytic residue [active] 469607004609 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 469607004610 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 469607004611 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 469607004612 DNA-binding site [nucleotide binding]; DNA binding site 469607004613 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 469607004614 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469607004615 homodimer interface [polypeptide binding]; other site 469607004616 catalytic residue [active] 469607004617 methionine gamma-lyase; Provisional; Region: PRK06234 469607004618 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 469607004619 homodimer interface [polypeptide binding]; other site 469607004620 substrate-cofactor binding pocket; other site 469607004621 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469607004622 catalytic residue [active] 469607004623 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 469607004624 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 469607004625 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 469607004626 dimer interface [polypeptide binding]; other site 469607004627 PYR/PP interface [polypeptide binding]; other site 469607004628 TPP binding site [chemical binding]; other site 469607004629 substrate binding site [chemical binding]; other site 469607004630 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 469607004631 Domain of unknown function; Region: EKR; smart00890 469607004632 4Fe-4S binding domain; Region: Fer4; pfam00037 469607004633 4Fe-4S binding domain; Region: Fer4; pfam00037 469607004634 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 469607004635 TPP-binding site [chemical binding]; other site 469607004636 dimer interface [polypeptide binding]; other site 469607004637 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 469607004638 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 469607004639 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 469607004640 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 469607004641 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 469607004642 FAD binding site [chemical binding]; other site 469607004643 homotetramer interface [polypeptide binding]; other site 469607004644 substrate binding pocket [chemical binding]; other site 469607004645 catalytic base [active] 469607004646 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 469607004647 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 469607004648 Rubredoxin; Region: Rubredoxin; pfam00301 469607004649 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 469607004650 iron binding site [ion binding]; other site 469607004651 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 469607004652 catalytic triad [active] 469607004653 putative active site [active] 469607004654 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 469607004655 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 469607004656 Autotransporter beta-domain; Region: Autotransporter; pfam03797 469607004657 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 469607004658 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 469607004659 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 469607004660 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 469607004661 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 469607004662 dimerization interface [polypeptide binding]; other site 469607004663 putative DNA binding site [nucleotide binding]; other site 469607004664 putative Zn2+ binding site [ion binding]; other site 469607004665 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 469607004666 metal-binding site [ion binding] 469607004667 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 469607004668 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 469607004669 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 469607004670 Abi-like protein; Region: Abi_2; pfam07751 469607004671 Predicted membrane protein [Function unknown]; Region: COG1288 469607004672 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 469607004673 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 469607004674 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 469607004675 Transposase; Region: DDE_Tnp_ISL3; pfam01610 469607004676 Autotransporter beta-domain; Region: Autotransporter; pfam03797 469607004677 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 469607004678 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 469607004679 ligand binding site [chemical binding]; other site 469607004680 Adhesion protein FadA; Region: FadA; pfam09403 469607004681 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 469607004682 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469607004683 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469607004684 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469607004685 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl17483 469607004686 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 469607004687 Soluble P-type ATPase [General function prediction only]; Region: COG4087 469607004688 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 469607004689 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 469607004690 metal-binding site [ion binding] 469607004691 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 469607004692 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 469607004693 metal-binding site [ion binding] 469607004694 alkylphosphonate utilization operon protein PhnA; Region: phnA; TIGR00686 469607004695 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 469607004696 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 469607004697 active site 469607004698 NTP binding site [chemical binding]; other site 469607004699 metal binding triad [ion binding]; metal-binding site 469607004700 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 469607004701 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 469607004702 Zn2+ binding site [ion binding]; other site 469607004703 Mg2+ binding site [ion binding]; other site 469607004704 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 469607004705 TrkA-N domain; Region: TrkA_N; pfam02254 469607004706 TrkA-C domain; Region: TrkA_C; pfam02080 469607004707 TrkA-N domain; Region: TrkA_N; pfam02254 469607004708 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 469607004709 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 469607004710 folate binding site [chemical binding]; other site 469607004711 NADP+ binding site [chemical binding]; other site 469607004712 Thymidylate synthase [Nucleotide transport and metabolism]; Region: ThyA; COG0207 469607004713 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 469607004714 dimerization interface [polypeptide binding]; other site 469607004715 active site 469607004716 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 469607004717 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 469607004718 Uncharacterized protein conserved in bacteria containing a pentein-type domain [Function unknown]; Region: COG4874 469607004719 Amidinotransferase; Region: Amidinotransf; pfam02274 469607004720 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 469607004721 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 469607004722 dimer interface [polypeptide binding]; other site 469607004723 conserved gate region; other site 469607004724 putative PBP binding loops; other site 469607004725 ABC-ATPase subunit interface; other site 469607004726 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 469607004727 NMT1/THI5 like; Region: NMT1; pfam09084 469607004728 Menaquinone biosynthesis; Region: VitK2_biosynth; cl17475 469607004729 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 469607004730 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 469607004731 Walker A/P-loop; other site 469607004732 ATP binding site [chemical binding]; other site 469607004733 Q-loop/lid; other site 469607004734 ABC transporter signature motif; other site 469607004735 Walker B; other site 469607004736 D-loop; other site 469607004737 H-loop/switch region; other site 469607004738 Uncharacterized conserved protein [Function unknown]; Region: COG1359 469607004739 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 469607004740 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 469607004741 Walker A/P-loop; other site 469607004742 ATP binding site [chemical binding]; other site 469607004743 Q-loop/lid; other site 469607004744 ABC transporter signature motif; other site 469607004745 Walker B; other site 469607004746 D-loop; other site 469607004747 H-loop/switch region; other site 469607004748 Domain of unknown function (DUF4418); Region: DUF4418; pfam14387 469607004749 Major membrane immunogen, membrane-anchored lipoprotein [Function unknown]; Region: COG4939 469607004750 This conserved region includes the FMN-binding site of the NqrC protein as well as the NosR and NirI regulatory proteins; Region: FMN_bind; smart00900 469607004751 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 469607004752 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 469607004753 Walker A/P-loop; other site 469607004754 ATP binding site [chemical binding]; other site 469607004755 Q-loop/lid; other site 469607004756 ABC transporter signature motif; other site 469607004757 Walker B; other site 469607004758 D-loop; other site 469607004759 H-loop/switch region; other site 469607004760 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 469607004761 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 469607004762 FtsX-like permease family; Region: FtsX; pfam02687 469607004763 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 469607004764 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 469607004765 FtsX-like permease family; Region: FtsX; pfam02687 469607004766 Predicted membrane protein [Function unknown]; Region: COG4393 469607004767 Predicted membrane protein (DUF2318); Region: DUF2318; pfam10080 469607004768 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 469607004769 GTP-binding protein YchF; Reviewed; Region: PRK09601 469607004770 YchF GTPase; Region: YchF; cd01900 469607004771 G1 box; other site 469607004772 GTP/Mg2+ binding site [chemical binding]; other site 469607004773 Switch I region; other site 469607004774 G2 box; other site 469607004775 Switch II region; other site 469607004776 G3 box; other site 469607004777 G4 box; other site 469607004778 G5 box; other site 469607004779 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 469607004780 triosephosphate isomerase; Provisional; Region: PRK14567 469607004781 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 469607004782 substrate binding site [chemical binding]; other site 469607004783 dimer interface [polypeptide binding]; other site 469607004784 catalytic triad [active] 469607004785 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 469607004786 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 469607004787 active site 469607004788 Predicted endonuclease distantly related to archaeal Holliday junction resolvase [DNA replication, recombination, and repair]; Region: COG0792 469607004789 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 469607004790 RNA/DNA hybrid binding site [nucleotide binding]; other site 469607004791 active site 469607004792 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 469607004793 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 469607004794 RNA binding surface [nucleotide binding]; other site 469607004795 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 469607004796 active site 469607004797 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 469607004798 putative deacylase active site [active] 469607004799 Propionate catabolism activator; Region: PrpR_N; pfam06506 469607004800 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 469607004801 2-hydroxycarboxylate transporter family; Region: 2HCT; cl01386 469607004802 oxaloacetate decarboxylase; Provisional; Region: PRK12331 469607004803 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 469607004804 active site 469607004805 catalytic residues [active] 469607004806 metal binding site [ion binding]; metal-binding site 469607004807 homodimer binding site [polypeptide binding]; other site 469607004808 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 469607004809 Citrate lyase, gamma subunit [Energy production and conversion]; Region: CitD; COG3052 469607004810 citrate lyase, beta subunit; Region: citE; TIGR01588 469607004811 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 469607004812 VWA domain containing CoxE-like protein; Region: VWA_CoxE; pfam05762 469607004813 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 469607004814 metal ion-dependent adhesion site (MIDAS); other site 469607004815 MoxR-like ATPases [General function prediction only]; Region: COG0714 469607004816 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 469607004817 Walker A motif; other site 469607004818 ATP binding site [chemical binding]; other site 469607004819 Walker B motif; other site 469607004820 arginine finger; other site 469607004821 SWIM zinc finger; Region: SWIM; pfam04434 469607004822 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 469607004823 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 469607004824 active site 469607004825 DEAD-like helicases superfamily; Region: DEXDc; smart00487 469607004826 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 469607004827 ATP binding site [chemical binding]; other site 469607004828 putative Mg++ binding site [ion binding]; other site 469607004829 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 469607004830 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 469607004831 nucleotide binding region [chemical binding]; other site 469607004832 ATP-binding site [chemical binding]; other site 469607004833 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 469607004834 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 469607004835 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 469607004836 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 469607004837 hypothetical protein; Provisional; Region: PRK07329 469607004838 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 469607004839 active site 469607004840 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 469607004841 active site 469607004842 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 469607004843 active site 469607004844 dimer interface [polypeptide binding]; other site 469607004845 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 469607004846 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740 469607004847 heterodimer interface [polypeptide binding]; other site 469607004848 active site 469607004849 FMN binding site [chemical binding]; other site 469607004850 homodimer interface [polypeptide binding]; other site 469607004851 substrate binding site [chemical binding]; other site 469607004852 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 469607004853 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 469607004854 FAD binding pocket [chemical binding]; other site 469607004855 FAD binding motif [chemical binding]; other site 469607004856 phosphate binding motif [ion binding]; other site 469607004857 beta-alpha-beta structure motif; other site 469607004858 NAD binding pocket [chemical binding]; other site 469607004859 Iron coordination center [ion binding]; other site 469607004860 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 469607004861 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 469607004862 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 469607004863 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 469607004864 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 469607004865 ATP-grasp domain; Region: ATP-grasp_4; cl17255 469607004866 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 469607004867 IMP binding site; other site 469607004868 dimer interface [polypeptide binding]; other site 469607004869 interdomain contacts; other site 469607004870 partial ornithine binding site; other site 469607004871 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 469607004872 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 469607004873 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 469607004874 catalytic site [active] 469607004875 subunit interface [polypeptide binding]; other site 469607004876 dihydroorotase; Validated; Region: pyrC; PRK09357 469607004877 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 469607004878 active site 469607004879 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 469607004880 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 469607004881 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 469607004882 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 469607004883 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 469607004884 active site 469607004885 Isochorismatase family; Region: Isochorismatase; pfam00857 469607004886 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 469607004887 catalytic triad [active] 469607004888 conserved cis-peptide bond; other site 469607004889 recombination protein RecR; Reviewed; Region: recR; PRK00076 469607004890 RecR protein; Region: RecR; pfam02132 469607004891 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 469607004892 putative active site [active] 469607004893 putative metal-binding site [ion binding]; other site 469607004894 tetramer interface [polypeptide binding]; other site 469607004895 hypothetical protein; Provisional; Region: PRK05423 469607004896 6-phosphofructokinase; Provisional; Region: PRK03202 469607004897 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 469607004898 active site 469607004899 ADP/pyrophosphate binding site [chemical binding]; other site 469607004900 dimerization interface [polypeptide binding]; other site 469607004901 allosteric effector site; other site 469607004902 fructose-1,6-bisphosphate binding site; other site 469607004903 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 469607004904 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 469607004905 Acetyl-CoA carboxylase beta subunit [Lipid metabolism]; Region: AccD; COG0777 469607004906 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 469607004907 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 469607004908 hypothetical protein; Provisional; Region: PRK11281 469607004909 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 469607004910 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 469607004911 active site 469607004912 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 469607004913 dimer interface [polypeptide binding]; other site 469607004914 substrate binding site [chemical binding]; other site 469607004915 catalytic residues [active] 469607004916 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 469607004917 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 469607004918 active site 469607004919 HIGH motif; other site 469607004920 dimer interface [polypeptide binding]; other site 469607004921 KMSKS motif; other site 469607004922 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 469607004923 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 469607004924 active site 469607004925 HIGH motif; other site 469607004926 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 469607004927 active site 469607004928 KMSKS motif; other site 469607004929 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469607004930 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469607004931 peptide chain release factor 2; Provisional; Region: PRK05589 469607004932 This domain is found in peptide chain release factors; Region: PCRF; smart00937 469607004933 RF-1 domain; Region: RF-1; pfam00472 469607004934 Phosphopantetheinyl transferase (holo-ACP synthase) [Lipid metabolism]; Region: AcpS; COG0736 469607004935 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 469607004936 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 469607004937 active site 469607004938 Autotransporter beta-domain; Region: Autotransporter; pfam03797 469607004939 Predicted permease [General function prediction only]; Region: COG2985 469607004940 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 469607004941 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 469607004942 cell division protein FtsZ; Validated; Region: PRK09330 469607004943 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 469607004944 nucleotide binding site [chemical binding]; other site 469607004945 SulA interaction site; other site 469607004946 cell division protein FtsA; Region: ftsA; TIGR01174 469607004947 Cell division protein FtsA; Region: FtsA; smart00842 469607004948 Cell division protein FtsA; Region: FtsA; pfam14450 469607004949 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 469607004950 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 469607004951 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 469607004952 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 469607004953 ATP-grasp domain; Region: ATP-grasp_4; cl17255 469607004954 UDP-N-acetylmuramate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: MurB; COG0812 469607004955 FAD binding domain; Region: FAD_binding_4; pfam01565 469607004956 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 469607004957 UDP-N-acetylmuramate-alanine ligase [Cell envelope biogenesis, outer membrane]; Region: MurC; COG0773 469607004958 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 469607004959 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 469607004960 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 469607004961 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 469607004962 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 469607004963 active site 469607004964 homodimer interface [polypeptide binding]; other site 469607004965 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 469607004966 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 469607004967 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 469607004968 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 469607004969 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 469607004970 Mg++ binding site [ion binding]; other site 469607004971 putative catalytic motif [active] 469607004972 putative substrate binding site [chemical binding]; other site 469607004973 Histidinol phosphatase and related phosphatases [Amino acid transport and metabolism]; Region: HisB; COG0241 469607004974 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 469607004975 active site 469607004976 motif I; other site 469607004977 motif II; other site 469607004978 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 469607004979 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 469607004980 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 469607004981 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 469607004982 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cl00470 469607004983 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 469607004984 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK12315 469607004985 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 469607004986 TPP-binding site; other site 469607004987 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 469607004988 PYR/PP interface [polypeptide binding]; other site 469607004989 dimer interface [polypeptide binding]; other site 469607004990 TPP binding site [chemical binding]; other site 469607004991 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 469607004992 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 469607004993 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 469607004994 DNA binding residues [nucleotide binding] 469607004995 putative dimer interface [polypeptide binding]; other site 469607004996 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 469607004997 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 469607004998 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 469607004999 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 469607005000 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 469607005001 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 469607005002 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 469607005003 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 469607005004 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 469607005005 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 469607005006 ATP binding site [chemical binding]; other site 469607005007 putative Mg++ binding site [ion binding]; other site 469607005008 AAA domain; Region: AAA_21; pfam13304 469607005009 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 469607005010 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 469607005011 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 469607005012 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 469607005013 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 469607005014 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 469607005015 HsdM N-terminal domain; Region: HsdM_N; pfam12161 469607005016 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 469607005017 S-adenosylmethionine binding site [chemical binding]; other site 469607005018 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 469607005019 MgtE intracellular N domain; Region: MgtE_N; smart00924 469607005020 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 469607005021 Divalent cation transporter; Region: MgtE; pfam01769 469607005022 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 469607005023 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 469607005024 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 469607005025 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 469607005026 Zn2+ binding site [ion binding]; other site 469607005027 Mg2+ binding site [ion binding]; other site 469607005028 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 469607005029 synthetase active site [active] 469607005030 NTP binding site [chemical binding]; other site 469607005031 metal binding site [ion binding]; metal-binding site 469607005032 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 469607005033 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 469607005034 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 469607005035 active site 469607005036 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 469607005037 Tetratricopeptide repeat; Region: TPR_16; pfam13432 469607005038 TPR motif; other site 469607005039 Uncharacterized conserved protein [Function unknown]; Region: COG2928 469607005040 Domain of unknown function DUF21; Region: DUF21; pfam01595 469607005041 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 469607005042 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 469607005043 Transporter associated domain; Region: CorC_HlyC; smart01091 469607005044 ACT domain-containing protein [General function prediction only]; Region: PheB; COG4492 469607005045 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 469607005046 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 469607005047 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 469607005048 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 469607005049 homodimer interface [polypeptide binding]; other site 469607005050 NADP binding site [chemical binding]; other site 469607005051 substrate binding site [chemical binding]; other site 469607005052 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 469607005053 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 469607005054 putative active site [active] 469607005055 substrate binding site [chemical binding]; other site 469607005056 putative cosubstrate binding site; other site 469607005057 catalytic site [active] 469607005058 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 469607005059 substrate binding site [chemical binding]; other site 469607005060 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 469607005061 ATP cone domain; Region: ATP-cone; pfam03477 469607005062 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 469607005063 active site 469607005064 phosphorylation site [posttranslational modification] 469607005065 Recombination protein O N terminal; Region: RecO_N; pfam11967 469607005066 DNA repair protein RecO; Region: reco; TIGR00613 469607005067 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 469607005068 putative spore coat protein regulator protein YlbO; Provisional; Region: PRK13923 469607005069 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 469607005070 Major Facilitator Superfamily; Region: MFS_1; pfam07690 469607005071 Histone acetyltransferase HPA2 and related acetyltransferases [Transcription / General function prediction only]; Region: WecD; COG0454 469607005072 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 469607005073 Coenzyme A binding pocket [chemical binding]; other site 469607005074 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 469607005075 SecY translocase; Region: SecY; pfam00344 469607005076 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 469607005077 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 469607005078 23S rRNA binding site [nucleotide binding]; other site 469607005079 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 469607005080 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 469607005081 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 469607005082 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 469607005083 23S rRNA interface [nucleotide binding]; other site 469607005084 L21e interface [polypeptide binding]; other site 469607005085 5S rRNA interface [nucleotide binding]; other site 469607005086 L27 interface [polypeptide binding]; other site 469607005087 L5 interface [polypeptide binding]; other site 469607005088 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 469607005089 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 469607005090 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 469607005091 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 469607005092 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 469607005093 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 469607005094 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 469607005095 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 469607005096 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 469607005097 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 469607005098 RNA binding site [nucleotide binding]; other site 469607005099 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 469607005100 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 469607005101 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 469607005102 23S rRNA interface [nucleotide binding]; other site 469607005103 putative translocon interaction site; other site 469607005104 signal recognition particle (SRP54) interaction site; other site 469607005105 L23 interface [polypeptide binding]; other site 469607005106 trigger factor interaction site; other site 469607005107 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 469607005108 23S rRNA interface [nucleotide binding]; other site 469607005109 5S rRNA interface [nucleotide binding]; other site 469607005110 putative antibiotic binding site [chemical binding]; other site 469607005111 L25 interface [polypeptide binding]; other site 469607005112 L27 interface [polypeptide binding]; other site 469607005113 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 469607005114 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 469607005115 G-X-X-G motif; other site 469607005116 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 469607005117 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 469607005118 putative translocon binding site; other site 469607005119 protein-rRNA interface [nucleotide binding]; other site 469607005120 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 469607005121 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 469607005122 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 469607005123 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 469607005124 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 469607005125 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 469607005126 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 469607005127 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 469607005128 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 469607005129 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469607005130 Walker A/P-loop; other site 469607005131 ATP binding site [chemical binding]; other site 469607005132 Q-loop/lid; other site 469607005133 ABC transporter signature motif; other site 469607005134 Walker B; other site 469607005135 D-loop; other site 469607005136 H-loop/switch region; other site 469607005137 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469607005138 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 469607005139 Walker A/P-loop; other site 469607005140 ATP binding site [chemical binding]; other site 469607005141 Q-loop/lid; other site 469607005142 ABC transporter signature motif; other site 469607005143 Walker B; other site 469607005144 D-loop; other site 469607005145 H-loop/switch region; other site 469607005146 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 469607005147 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 469607005148 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 469607005149 dimer interface [polypeptide binding]; other site 469607005150 conserved gate region; other site 469607005151 putative PBP binding loops; other site 469607005152 ABC-ATPase subunit interface; other site 469607005153 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 469607005154 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 469607005155 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 469607005156 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_3; cd08490 469607005157 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 469607005158 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 469607005159 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 469607005160 EamA-like transporter family; Region: EamA; pfam00892 469607005161 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 469607005162 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469607005163 Walker A/P-loop; other site 469607005164 ATP binding site [chemical binding]; other site 469607005165 Q-loop/lid; other site 469607005166 ABC transporter signature motif; other site 469607005167 Walker B; other site 469607005168 D-loop; other site 469607005169 H-loop/switch region; other site 469607005170 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 469607005171 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469607005172 Walker A/P-loop; other site 469607005173 ATP binding site [chemical binding]; other site 469607005174 Q-loop/lid; other site 469607005175 ABC transporter signature motif; other site 469607005176 Walker B; other site 469607005177 D-loop; other site 469607005178 H-loop/switch region; other site 469607005179 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 469607005180 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 469607005181 dimer interface [polypeptide binding]; other site 469607005182 conserved gate region; other site 469607005183 putative PBP binding loops; other site 469607005184 ABC-ATPase subunit interface; other site 469607005185 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 469607005186 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 469607005187 dimer interface [polypeptide binding]; other site 469607005188 conserved gate region; other site 469607005189 putative PBP binding loops; other site 469607005190 ABC-ATPase subunit interface; other site 469607005191 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 469607005192 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 469607005193 substrate binding site [chemical binding]; other site 469607005194 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 469607005195 homopentamer interface [polypeptide binding]; other site 469607005196 active site 469607005197 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 469607005198 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 469607005199 catalytic motif [active] 469607005200 Zn binding site [ion binding]; other site 469607005201 RibD C-terminal domain; Region: RibD_C; cl17279 469607005202 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 469607005203 Lumazine binding domain; Region: Lum_binding; pfam00677 469607005204 Lumazine binding domain; Region: Lum_binding; pfam00677 469607005205 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 469607005206 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 469607005207 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 469607005208 dimerization interface [polypeptide binding]; other site 469607005209 active site 469607005210 RelB antitoxin; Region: RelB; cl01171 469607005211 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469607005212 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469607005213 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469607005214 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469607005215 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469607005216 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469607005217 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 469607005218 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 469607005219 HIGH motif; other site 469607005220 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 469607005221 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 469607005222 active site 469607005223 KMSKS motif; other site 469607005224 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 469607005225 tRNA binding surface [nucleotide binding]; other site 469607005226 RNA polymerase factor sigma-70; Validated; Region: PRK08295 469607005227 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 469607005228 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 469607005229 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 469607005230 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 469607005231 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 469607005232 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 469607005233 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 469607005234 hinge; other site 469607005235 active site 469607005236 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469607005237 AAA domain; Region: AAA_21; pfam13304 469607005238 Walker A/P-loop; other site 469607005239 ATP binding site [chemical binding]; other site 469607005240 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 469607005241 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469607005242 ABC transporter signature motif; other site 469607005243 Walker B; other site 469607005244 D-loop; other site 469607005245 H-loop/switch region; other site 469607005246 TIGR02646 family protein; Region: TIGR02646 469607005247 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 469607005248 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 469607005249 dimer interface [polypeptide binding]; other site 469607005250 conserved gate region; other site 469607005251 ABC-ATPase subunit interface; other site 469607005252 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 469607005253 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 469607005254 dimer interface [polypeptide binding]; other site 469607005255 conserved gate region; other site 469607005256 putative PBP binding loops; other site 469607005257 ABC-ATPase subunit interface; other site 469607005258 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 469607005259 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_3; cd08490 469607005260 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469607005261 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 469607005262 Walker A/P-loop; other site 469607005263 ATP binding site [chemical binding]; other site 469607005264 Q-loop/lid; other site 469607005265 ABC transporter signature motif; other site 469607005266 Walker B; other site 469607005267 D-loop; other site 469607005268 H-loop/switch region; other site 469607005269 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 469607005270 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 469607005271 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469607005272 Walker A/P-loop; other site 469607005273 ATP binding site [chemical binding]; other site 469607005274 Q-loop/lid; other site 469607005275 ABC transporter signature motif; other site 469607005276 Walker B; other site 469607005277 D-loop; other site 469607005278 H-loop/switch region; other site 469607005279 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 469607005280 Autotransporter beta-domain; Region: Autotransporter; pfam03797 469607005281 Adhesion protein FadA; Region: FadA; pfam09403 469607005282 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 469607005283 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 469607005284 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 469607005285 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 469607005286 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 469607005287 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 469607005288 Ligand binding site [chemical binding]; other site 469607005289 Electron transfer flavoprotein domain; Region: ETF; pfam01012 469607005290 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 469607005291 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 469607005292 active site 469607005293 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 469607005294 FAD binding domain; Region: FAD_binding_4; pfam01565 469607005295 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 469607005296 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 469607005297 P loop; other site 469607005298 Nucleotide binding site [chemical binding]; other site 469607005299 DTAP/Switch II; other site 469607005300 Switch I; other site 469607005301 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 469607005302 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 469607005303 P loop; other site 469607005304 Nucleotide binding site [chemical binding]; other site 469607005305 DTAP/Switch II; other site 469607005306 Switch I; other site 469607005307 Uncharacterized conserved protein [Function unknown]; Region: COG1556 469607005308 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 469607005309 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 469607005310 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 469607005311 Cysteine-rich domain; Region: CCG; pfam02754 469607005312 Cysteine-rich domain; Region: CCG; pfam02754 469607005313 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 469607005314 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 469607005315 substrate binding pocket [chemical binding]; other site 469607005316 chain length determination region; other site 469607005317 substrate-Mg2+ binding site; other site 469607005318 catalytic residues [active] 469607005319 aspartate-rich region 1; other site 469607005320 active site lid residues [active] 469607005321 aspartate-rich region 2; other site 469607005322 1,4-dihydroxy-2-naphthoate octaprenyltransferase [Coenzyme metabolism]; Region: MenA; COG1575 469607005323 UbiA prenyltransferase family; Region: UbiA; pfam01040 469607005324 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 469607005325 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 469607005326 S-adenosylmethionine binding site [chemical binding]; other site 469607005327 oxidoreductase; Provisional; Region: PRK10015 469607005328 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 469607005329 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 469607005330 PemK-like protein; Region: PemK; pfam02452 469607005331 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 469607005332 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 469607005333 elongation factor G; Reviewed; Region: PRK12740 469607005334 G1 box; other site 469607005335 putative GEF interaction site [polypeptide binding]; other site 469607005336 GTP/Mg2+ binding site [chemical binding]; other site 469607005337 Switch I region; other site 469607005338 G2 box; other site 469607005339 G3 box; other site 469607005340 Switch II region; other site 469607005341 G4 box; other site 469607005342 G5 box; other site 469607005343 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 469607005344 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 469607005345 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 469607005346 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 469607005347 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 469607005348 PTS_IIB, PTS system, glucose/sucrose specific IIB 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_IIB_glc; cd00212 469607005349 active site turn [active] 469607005350 phosphorylation site [posttranslational modification] 469607005351 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 469607005352 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 469607005353 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 469607005354 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 469607005355 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 469607005356 Autotransporter beta-domain; Region: Autotransporter; pfam03797 469607005357 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 469607005358 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 469607005359 elongation factor Tu; Reviewed; Region: PRK00049 469607005360 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 469607005361 G1 box; other site 469607005362 GEF interaction site [polypeptide binding]; other site 469607005363 GTP/Mg2+ binding site [chemical binding]; other site 469607005364 Switch I region; other site 469607005365 G2 box; other site 469607005366 G3 box; other site 469607005367 Switch II region; other site 469607005368 G4 box; other site 469607005369 G5 box; other site 469607005370 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 469607005371 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 469607005372 Antibiotic Binding Site [chemical binding]; other site 469607005373 elongation factor G; Reviewed; Region: PRK00007 469607005374 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 469607005375 G1 box; other site 469607005376 putative GEF interaction site [polypeptide binding]; other site 469607005377 GTP/Mg2+ binding site [chemical binding]; other site 469607005378 Switch I region; other site 469607005379 G2 box; other site 469607005380 G3 box; other site 469607005381 Switch II region; other site 469607005382 G4 box; other site 469607005383 G5 box; other site 469607005384 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 469607005385 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 469607005386 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 469607005387 30S ribosomal protein S7; Validated; Region: PRK05302 469607005388 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 469607005389 S17 interaction site [polypeptide binding]; other site 469607005390 S8 interaction site; other site 469607005391 16S rRNA interaction site [nucleotide binding]; other site 469607005392 streptomycin interaction site [chemical binding]; other site 469607005393 23S rRNA interaction site [nucleotide binding]; other site 469607005394 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 469607005395 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 469607005396 NhaP-type Na+/H+ and K+/H+ antiporters with a unique C-terminal domain [Inorganic ion transport and metabolism]; Region: COG3263 469607005397 TrkA-C domain; Region: TrkA_C; pfam02080 469607005398 TrkA-C domain; Region: TrkA_C; pfam02080 469607005399 peptidyl-prolyl cis-trans isomerase, EpsD family; Region: cis_trans_EpsD; TIGR02925 469607005400 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 469607005401 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 469607005402 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 469607005403 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 469607005404 Smr domain; Region: Smr; pfam01713 469607005405 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 469607005406 GIY-YIG motif/motif A; other site 469607005407 putative active site [active] 469607005408 putative metal binding site [ion binding]; other site 469607005409 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 469607005410 DNA polymerase III subunit delta'; Validated; Region: PRK08485 469607005411 rod shape-determining protein MreB; Provisional; Region: PRK13930 469607005412 MreB and similar proteins; Region: MreB_like; cd10225 469607005413 nucleotide binding site [chemical binding]; other site 469607005414 Mg binding site [ion binding]; other site 469607005415 putative protofilament interaction site [polypeptide binding]; other site 469607005416 RodZ interaction site [polypeptide binding]; other site 469607005417 Ribonuclease III family protein [Replication, recombination, and repair]; Region: COG1939 469607005418 active site 469607005419 metal binding site [ion binding]; metal-binding site 469607005420 dimerization interface [polypeptide binding]; other site 469607005421 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 469607005422 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 469607005423 active site 469607005424 HIGH motif; other site 469607005425 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 469607005426 KMSKS motif; other site 469607005427 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 469607005428 tRNA binding surface [nucleotide binding]; other site 469607005429 anticodon binding site; other site 469607005430 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 469607005431 substrate binding site; other site 469607005432 dimer interface; other site 469607005433 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 469607005434 MutS domain III; Region: MutS_III; pfam05192 469607005435 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 469607005436 Walker A/P-loop; other site 469607005437 ATP binding site [chemical binding]; other site 469607005438 Q-loop/lid; other site 469607005439 ABC transporter signature motif; other site 469607005440 Walker B; other site 469607005441 D-loop; other site 469607005442 H-loop/switch region; other site 469607005443 Smr domain; Region: Smr; pfam01713 469607005444 Domain of unknown function (DUF3870); Region: DUF3870; pfam12986 469607005445 Beta-lactamase class A [Defense mechanisms]; Region: PenP; COG2367 469607005446 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 469607005447 Predicted integral membrane protein [Function unknown]; Region: COG5505 469607005448 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 469607005449 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 469607005450 active site 469607005451 Predicted transcriptional regulator [Transcription]; Region: COG2932 469607005452 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 469607005453 non-specific DNA binding site [nucleotide binding]; other site 469607005454 salt bridge; other site 469607005455 sequence-specific DNA binding site [nucleotide binding]; other site 469607005456 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 469607005457 Catalytic site [active] 469607005458 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 469607005459 dimerization interface [polypeptide binding]; other site 469607005460 ligand binding site [chemical binding]; other site 469607005461 Predicted NADH:ubiquinone oxidoreductase, subunit RnfB [Energy production and conversion]; Region: COG2878 469607005462 Putative Fe-S cluster; Region: FeS; cl17515 469607005463 Predicted NADH:ubiquinone oxidoreductase, subunit RnfA [Energy production and conversion]; Region: RnfA; COG4657 469607005464 electron transport complex RsxE subunit; Provisional; Region: PRK12405 469607005465 Predicted NADH:ubiquinone oxidoreductase, subunit RnfG [Energy production and conversion]; Region: RnfG; COG4659 469607005466 electron transport complex, RnfABCDGE type, D subunit; Region: rnfD; TIGR01946 469607005467 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 469607005468 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 469607005469 E3 interaction surface; other site 469607005470 lipoyl attachment site [posttranslational modification]; other site 469607005471 SLBB domain; Region: SLBB; pfam10531 469607005472 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 469607005473 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 469607005474 putative active site [active] 469607005475 catalytic residue [active] 469607005476 Peptidase family M48; Region: Peptidase_M48; cl12018 469607005477 Uncharacterized protein conserved in bacteria (DUF2247); Region: DUF2247; cl01763 469607005478 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 469607005479 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 469607005480 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 469607005481 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 469607005482 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 469607005483 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 469607005484 Pseudouridylate synthase [Translation, ribosomal structure and biogenesis]; Region: TruA; COG0101 469607005485 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 469607005486 dimerization interface 3.5A [polypeptide binding]; other site 469607005487 active site 469607005488 DHH family; Region: DHH; pfam01368 469607005489 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 469607005490 DHHA1 domain; Region: DHHA1; pfam02272 469607005491 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 469607005492 Antitoxin of toxin-antitoxin stability system N-terminal; Region: RelB_N; pfam12910 469607005493 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 469607005494 Glycerophosphodiester phosphodiesterase domain of Escherichia coli (GlpQ) and similar proteins; Region: GDPD_EcGlpQ_like; cd08600 469607005495 active site 469607005496 catalytic site [active] 469607005497 metal binding site [ion binding]; metal-binding site 469607005498 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Region: lipid_A_lpxD; TIGR01853 469607005499 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 469607005500 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 469607005501 trimer interface [polypeptide binding]; other site 469607005502 active site 469607005503 UDP-GlcNAc binding site [chemical binding]; other site 469607005504 lipid binding site [chemical binding]; lipid-binding site 469607005505 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 469607005506 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 469607005507 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 469607005508 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 469607005509 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 469607005510 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 469607005511 Surface antigen; Region: Bac_surface_Ag; pfam01103 469607005512 Family of unknown function (DUF490); Region: DUF490; pfam04357 469607005513 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 469607005514 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 469607005515 HSP70 interaction site [polypeptide binding]; other site 469607005516 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 469607005517 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 469607005518 Substrate binding site; other site 469607005519 Mg++ binding site; other site 469607005520 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 469607005521 active site 469607005522 substrate binding site [chemical binding]; other site 469607005523 CoA binding site [chemical binding]; other site 469607005524 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 469607005525 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 469607005526 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 469607005527 active site 469607005528 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 469607005529 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 469607005530 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 469607005531 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 469607005532 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 469607005533 Clp amino terminal domain; Region: Clp_N; pfam02861 469607005534 Clp amino terminal domain; Region: Clp_N; pfam02861 469607005535 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 469607005536 Walker A motif; other site 469607005537 ATP binding site [chemical binding]; other site 469607005538 Walker B motif; other site 469607005539 arginine finger; other site 469607005540 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 469607005541 Walker A motif; other site 469607005542 ATP binding site [chemical binding]; other site 469607005543 Walker B motif; other site 469607005544 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 469607005545 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 469607005546 RelB antitoxin; Region: RelB; cl01171 469607005547 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 469607005548 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 469607005549 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 469607005550 YheO-like PAS domain; Region: PAS_6; pfam08348 469607005551 HTH domain; Region: HTH_22; pfam13309 469607005552 Tryptophanase [Amino acid transport and metabolism]; Region: TnaA; COG3033 469607005553 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 469607005554 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 469607005555 catalytic residue [active] 469607005556 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 469607005557 Na2 binding site [ion binding]; other site 469607005558 putative substrate binding site 1 [chemical binding]; other site 469607005559 Na binding site 1 [ion binding]; other site 469607005560 putative substrate binding site 2 [chemical binding]; other site 469607005561 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 469607005562 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 469607005563 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 469607005564 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 469607005565 catalytic triad [active] 469607005566 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 469607005567 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 469607005568 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 469607005569 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 469607005570 putative active site [active] 469607005571 Tetratricopeptide repeat; Region: TPR_16; pfam13432 469607005572 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 469607005573 binding surface 469607005574 TPR motif; other site 469607005575 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 469607005576 binding surface 469607005577 TPR motif; other site 469607005578 Tetratricopeptide repeat; Region: TPR_12; pfam13424 469607005579 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 469607005580 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 469607005581 Metal-binding active site; metal-binding site 469607005582 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 469607005583 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 469607005584 Walker A/P-loop; other site 469607005585 ATP binding site [chemical binding]; other site 469607005586 Q-loop/lid; other site 469607005587 ABC transporter signature motif; other site 469607005588 Walker B; other site 469607005589 D-loop; other site 469607005590 H-loop/switch region; other site 469607005591 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 469607005592 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 469607005593 ABC-ATPase subunit interface; other site 469607005594 dimer interface [polypeptide binding]; other site 469607005595 putative PBP binding regions; other site 469607005596 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 469607005597 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 469607005598 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 469607005599 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 469607005600 N-terminal plug; other site 469607005601 ligand-binding site [chemical binding]; other site 469607005602 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 469607005603 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 469607005604 DNA binding residues [nucleotide binding] 469607005605 putative dimer interface [polypeptide binding]; other site 469607005606 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 469607005607 classical (c) SDRs; Region: SDR_c; cd05233 469607005608 NAD(P) binding site [chemical binding]; other site 469607005609 active site 469607005610 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 469607005611 homotrimer interaction site [polypeptide binding]; other site 469607005612 putative active site [active] 469607005613 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_b2; cd09204 469607005614 PLD-like domain; Region: PLDc_2; pfam13091 469607005615 putative homodimer interface [polypeptide binding]; other site 469607005616 putative active site [active] 469607005617 catalytic site [active] 469607005618 DNA phosphorothioation system restriction enzyme; Region: dnd_restrict_1; TIGR04095 469607005619 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 469607005620 ATP binding site [chemical binding]; other site 469607005621 putative Mg++ binding site [ion binding]; other site 469607005622 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 469607005623 nucleotide binding region [chemical binding]; other site 469607005624 ATP-binding site [chemical binding]; other site 469607005625 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 469607005626 DEAD-like helicases superfamily; Region: DEXDc; smart00487 469607005627 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 469607005628 ATP binding site [chemical binding]; other site 469607005629 Mg++ binding site [ion binding]; other site 469607005630 motif III; other site 469607005631 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 469607005632 nucleotide binding region [chemical binding]; other site 469607005633 ATP-binding site [chemical binding]; other site 469607005634 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 469607005635 RNA binding site [nucleotide binding]; other site 469607005636 YceG-like family; Region: YceG; pfam02618 469607005637 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 469607005638 dimerization interface [polypeptide binding]; other site 469607005639 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 469607005640 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 469607005641 Ligand Binding Site [chemical binding]; other site 469607005642 TilS substrate C-terminal domain; Region: TilS_C; smart00977 469607005643 FtsH Extracellular; Region: FtsH_ext; pfam06480 469607005644 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 469607005645 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 469607005646 Walker A motif; other site 469607005647 ATP binding site [chemical binding]; other site 469607005648 Walker B motif; other site 469607005649 arginine finger; other site 469607005650 Peptidase family M41; Region: Peptidase_M41; pfam01434 469607005651 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 469607005652 16S/18S rRNA binding site [nucleotide binding]; other site 469607005653 S13e-L30e interaction site [polypeptide binding]; other site 469607005654 25S rRNA binding site [nucleotide binding]; other site 469607005655 Predicted multitransmembrane protein [Function unknown]; Region: COG5438 469607005656 peroxiredoxin; Region: AhpC; TIGR03137 469607005657 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 469607005658 dimer interface [polypeptide binding]; other site 469607005659 decamer (pentamer of dimers) interface [polypeptide binding]; other site 469607005660 catalytic triad [active] 469607005661 peroxidatic and resolving cysteines [active] 469607005662 putative alkyl hydroperoxide reductase F subunit; Region: AhpF_homolog; TIGR03143 469607005663 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 469607005664 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 469607005665 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 469607005666 catalytic residue [active] 469607005667 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 469607005668 Inner membrane protein CreD; Region: CreD; cl01844 469607005669 Domain of unknown function (DUF4424); Region: DUF4424; pfam14415 469607005670 YARHG domain; Region: YARHG; pfam13308 469607005671 Transcriptional regulators [Transcription]; Region: GntR; COG1802 469607005672 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 469607005673 DNA-binding site [nucleotide binding]; DNA binding site 469607005674 tyrosine phenol-lyase; Provisional; Region: PRK13237 469607005675 Tryptophanase family (Tnase). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to tryptophanase (Tnase) and tyrosine phenol-lyase (TPL). Tnase and TPL are...; Region: Tnase_like; cd00617 469607005676 substrate binding site [chemical binding]; other site 469607005677 tetramer interface [polypeptide binding]; other site 469607005678 catalytic residue [active] 469607005679 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 469607005680 Na2 binding site [ion binding]; other site 469607005681 putative substrate binding site 1 [chemical binding]; other site 469607005682 Na binding site 1 [ion binding]; other site 469607005683 putative substrate binding site 2 [chemical binding]; other site 469607005684 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 469607005685 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 469607005686 S-adenosylmethionine binding site [chemical binding]; other site 469607005687 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 469607005688 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 469607005689 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 469607005690 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 469607005691 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 469607005692 TrkA-N domain; Region: TrkA_N; pfam02254 469607005693 TrkA-C domain; Region: TrkA_C; pfam02080 469607005694 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 469607005695 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 469607005696 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 469607005697 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 469607005698 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 469607005699 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-linked...; Region: EriC; cd01031 469607005700 Cl- selectivity filter; other site 469607005701 Cl- binding residues [ion binding]; other site 469607005702 pore gating glutamate residue; other site 469607005703 dimer interface [polypeptide binding]; other site 469607005704 H+/Cl- coupling transport residue; other site 469607005705 TrkA-C domain; Region: TrkA_C; pfam02080 469607005706 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 469607005707 putative substrate binding pocket [chemical binding]; other site 469607005708 AC domain interface; other site 469607005709 catalytic triad [active] 469607005710 AB domain interface; other site 469607005711 interchain disulfide; other site 469607005712 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 469607005713 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 469607005714 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469607005715 catalytic residue [active] 469607005716 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 469607005717 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 469607005718 chorismate binding enzyme; Region: Chorismate_bind; cl10555 469607005719 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 469607005720 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 469607005721 glutamine binding [chemical binding]; other site 469607005722 catalytic triad [active] 469607005723 Diaminopimelate epimerase [Amino acid transport and metabolism]; Region: DapF; COG0253 469607005724 V-type ATP synthase subunit D; Reviewed; Region: PRK00373 469607005725 V-type ATP synthase subunit B; Provisional; Region: PRK04196 469607005726 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 469607005727 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_B; cd01135 469607005728 Walker A motif homologous position; other site 469607005729 Walker B motif; other site 469607005730 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 469607005731 V-type ATP synthase subunit A; Provisional; Region: PRK04192 469607005732 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 469607005733 V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_A; cd01134 469607005734 Walker A motif/ATP binding site; other site 469607005735 Walker B motif; other site 469607005736 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 469607005737 V-type ATP synthase subunit F; Provisional; Region: PRK01395 469607005738 Archaeal/vacuolar-type H+-ATPase subunit C [Energy production and conversion]; Region: NtpC; COG1527 469607005739 V-type ATP synthase subunit C; Provisional; Region: PRK01198 469607005740 Archaeal/vacuolar-type H+-ATPase subunit E [Energy production and conversion]; Region: NtpE; COG1390 469607005741 V-type ATP synthase subunit E; Provisional; Region: PRK03963; cl17074 469607005742 V-type ATP synthase subunit K; Validated; Region: PRK06558 469607005743 ATP synthase subunit C; Region: ATP-synt_C; pfam00137 469607005744 ATP synthase subunit C; Region: ATP-synt_C; pfam00137 469607005745 V-type ATP synthase subunit I; Validated; Region: PRK05771 469607005746 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 469607005747 thiamine phosphate binding site [chemical binding]; other site 469607005748 active site 469607005749 pyrophosphate binding site [ion binding]; other site 469607005750 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 469607005751 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 469607005752 FeS/SAM binding site; other site 469607005753 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 469607005754 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 469607005755 ThiS interaction site; other site 469607005756 putative active site [active] 469607005757 tetramer interface [polypeptide binding]; other site 469607005758 thiamine biosynthesis protein ThiF; Provisional; Region: PRK08644 469607005759 E1_ThiF_like. Member of superfamily of activating enzymes (E1) of the ubiquitin-like proteins. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like substrate, on...; Region: E1_ThiF_like; cd01487 469607005760 putative ATP binding site [chemical binding]; other site 469607005761 putative substrate interface [chemical binding]; other site 469607005762 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 469607005763 thiS-thiF/thiG interaction site; other site 469607005764 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 469607005765 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 469607005766 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 469607005767 thiamine phosphate binding site [chemical binding]; other site 469607005768 active site 469607005769 pyrophosphate binding site [ion binding]; other site 469607005770 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 469607005771 dimer interface [polypeptide binding]; other site 469607005772 substrate binding site [chemical binding]; other site 469607005773 ATP binding site [chemical binding]; other site 469607005774 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 469607005775 yrhL-like subfamily of SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_yrhL_like; cd01840 469607005776 catalytic triad [active] 469607005777 catalytic triad [active] 469607005778 oxyanion hole [active] 469607005779 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 469607005780 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 469607005781 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 469607005782 ApbE family; Region: ApbE; pfam02424 469607005783 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 469607005784 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 469607005785 catalytic site [active] 469607005786 G-X2-G-X-G-K; other site 469607005787 Uncharacterized stress-induced protein [Function unknown]; Region: COG1561 469607005788 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 469607005789 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 469607005790 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 469607005791 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 469607005792 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 469607005793 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 469607005794 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 469607005795 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 469607005796 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 469607005797 cleft; other site 469607005798 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 469607005799 Rpb1 - Rpb5 interaction site [polypeptide binding]; other site 469607005800 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 469607005801 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 469607005802 DNA binding site [nucleotide binding] 469607005803 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 469607005804 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 469607005805 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 469607005806 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 469607005807 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 469607005808 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 469607005809 RPB1 interaction site [polypeptide binding]; other site 469607005810 RPB10 interaction site [polypeptide binding]; other site 469607005811 RPB11 interaction site [polypeptide binding]; other site 469607005812 RPB3 interaction site [polypeptide binding]; other site 469607005813 RPB12 interaction site [polypeptide binding]; other site 469607005814 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 469607005815 peripheral dimer interface [polypeptide binding]; other site 469607005816 core dimer interface [polypeptide binding]; other site 469607005817 L10 interface [polypeptide binding]; other site 469607005818 L11 interface [polypeptide binding]; other site 469607005819 putative EF-Tu interaction site [polypeptide binding]; other site 469607005820 putative EF-G interaction site [polypeptide binding]; other site 469607005821 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 469607005822 23S rRNA interface [nucleotide binding]; other site 469607005823 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 469607005824 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 469607005825 mRNA/rRNA interface [nucleotide binding]; other site 469607005826 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 469607005827 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 469607005828 23S rRNA interface [nucleotide binding]; other site 469607005829 L7/L12 interface [polypeptide binding]; other site 469607005830 putative thiostrepton binding site; other site 469607005831 L25 interface [polypeptide binding]; other site 469607005832 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 469607005833 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 469607005834 putative homodimer interface [polypeptide binding]; other site 469607005835 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 469607005836 heterodimer interface [polypeptide binding]; other site 469607005837 homodimer interface [polypeptide binding]; other site 469607005838 Preprotein translocase subunit SecE [Intracellular trafficking and secretion]; Region: SecE; COG0690 469607005839 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 469607005840 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 469607005841 metal binding site 2 [ion binding]; metal-binding site 469607005842 putative DNA binding helix; other site 469607005843 metal binding site 1 [ion binding]; metal-binding site 469607005844 dimer interface [polypeptide binding]; other site 469607005845 structural Zn2+ binding site [ion binding]; other site 469607005846 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 469607005847 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 469607005848 Coenzyme A binding pocket [chemical binding]; other site 469607005849 Autotransporter beta-domain; Region: Autotransporter; pfam03797 469607005850 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 469607005851 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 469607005852 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 469607005853 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 469607005854 active site 469607005855 dimer interface [polypeptide binding]; other site 469607005856 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 469607005857 dimer interface [polypeptide binding]; other site 469607005858 active site 469607005859 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 469607005860 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 469607005861 active site 469607005862 motif I; other site 469607005863 motif II; other site 469607005864 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 469607005865 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 469607005866 active site 469607005867 putative catalytic site [active] 469607005868 DNA binding site [nucleotide binding] 469607005869 putative phosphate binding site [ion binding]; other site 469607005870 metal binding site A [ion binding]; metal-binding site 469607005871 AP binding site [nucleotide binding]; other site 469607005872 metal binding site B [ion binding]; metal-binding site 469607005873 Dehydroquinase class II; Region: DHquinase_II; pfam01220 469607005874 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 469607005875 trimer interface [polypeptide binding]; other site 469607005876 active site 469607005877 dimer interface [polypeptide binding]; other site 469607005878 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 469607005879 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 469607005880 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 469607005881 shikimate binding site; other site 469607005882 NAD(P) binding site [chemical binding]; other site 469607005883 monofunctional chorismate mutase, gram positive-type, clade 2; Region: CM_mono_grmpos; TIGR01805 469607005884 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469607005885 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 469607005886 Bacterial protein of unknown function (DUF896); Region: DUF896; pfam05979 469607005887 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 469607005888 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 469607005889 putative dimer interface [polypeptide binding]; other site 469607005890 putative anticodon binding site; other site 469607005891 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 469607005892 homodimer interface [polypeptide binding]; other site 469607005893 motif 1; other site 469607005894 motif 2; other site 469607005895 active site 469607005896 motif 3; other site 469607005897 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 469607005898 TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low...; Region: TOPRIM_RNase_M5_like; cd01027 469607005899 putative active site [active] 469607005900 putative metal binding site [ion binding]; other site 469607005901 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 469607005902 Protein of unknown function (DUF3290); Region: DUF3290; pfam11694 469607005903 Predicted membrane protein [Function unknown]; Region: COG2323 469607005904 Domain of unknown function (DUF4132); Region: DUF4132; pfam13569 469607005905 Predicted membrane protein [Function unknown]; Region: COG2261 469607005906 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 469607005907 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 469607005908 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 469607005909 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 469607005910 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 469607005911 Potassium binding sites [ion binding]; other site 469607005912 Cesium cation binding sites [ion binding]; other site 469607005913 Predicted membrane protein [Function unknown]; Region: COG3619 469607005914 Autotransporter beta-domain; Region: Autotransporter; pfam03797 469607005915 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 469607005916 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 469607005917 ligand binding site [chemical binding]; other site 469607005918 Adhesion protein FadA; Region: FadA; pfam09403 469607005919 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 469607005920 non-specific DNA binding site [nucleotide binding]; other site 469607005921 salt bridge; other site 469607005922 sequence-specific DNA binding site [nucleotide binding]; other site 469607005923 Domain of unknown function (DUF955); Region: DUF955; cl01076 469607005924 Divergent AAA domain; Region: AAA_4; pfam04326 469607005925 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 469607005926 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 469607005927 HTH domain; Region: HTH_11; pfam08279 469607005928 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 469607005929 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 469607005930 catalytic residues [active] 469607005931 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 469607005932 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 469607005933 Zn2+ binding site [ion binding]; other site 469607005934 Mg2+ binding site [ion binding]; other site 469607005935 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 469607005936 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 469607005937 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 469607005938 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 469607005939 Probable transposase; Region: OrfB_IS605; pfam01385 469607005940 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 469607005941 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 469607005942 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 469607005943 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 469607005944 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 469607005945 catalytic triad [active] 469607005946 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 469607005947 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 469607005948 active site 469607005949 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 469607005950 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 469607005951 hypothetical protein; Provisional; Region: PRK11588 469607005952 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 469607005953 Uncharacterized protein, involved in the regulation of septum location [Cell envelope biogenesis, outer membrane]; Region: SpoVG; COG2088 469607005954 4-diphosphocytidyl-2C-methyl-D-erythritol 2-phosphate synthase [Lipid metabolism]; Region: IspE; COG1947 469607005955 4-diphosphocytidyl-2C-methyl-D-erythritol 2-phosphate synthase [Lipid metabolism]; Region: IspE; COG1947 469607005956 Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit (S4 paralog) [Translation, ribosomal structure and biogenesis]; Region: COG1188 469607005957 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 469607005958 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 469607005959 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 469607005960 ATP binding site [chemical binding]; other site 469607005961 putative Mg++ binding site [ion binding]; other site 469607005962 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 469607005963 nucleotide binding region [chemical binding]; other site 469607005964 ATP-binding site [chemical binding]; other site 469607005965 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 469607005966 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 469607005967 Fic family protein [Function unknown]; Region: COG3177 469607005968 Fic/DOC family; Region: Fic; pfam02661 469607005969 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 469607005970 Domain of unknown function (DUF1877); Region: DUF1877; pfam08974 469607005971 Protein of unknown function (DUF554); Region: DUF554; pfam04474 469607005972 Adenylate kinase and related kinases [Nucleotide transport and metabolism]; Region: Adk; COG0563 469607005973 AAA domain; Region: AAA_17; pfam13207 469607005974 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 469607005975 HTH domain; Region: HTH_11; pfam08279 469607005976 3H domain; Region: 3H; pfam02829 469607005977 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06559 469607005978 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 469607005979 dimerization interface [polypeptide binding]; other site 469607005980 active site 469607005981 L-aspartate oxidase; Provisional; Region: PRK06175 469607005982 FAD binding domain; Region: FAD_binding_2; pfam00890 469607005983 Quinolinate synthetase A protein; Region: NadA; pfam02445 469607005984 Autotransporter beta-domain; Region: Autotransporter; pfam03797 469607005985 Flavin-dependent tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA [Cell cycle control, cell division, chromosome partitioning]; Region: GidA; COG0445 469607005986 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 469607005987 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 469607005988 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 469607005989 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 469607005990 trmE is a tRNA modification GTPase; Region: trmE; cd04164 469607005991 G1 box; other site 469607005992 GTP/Mg2+ binding site [chemical binding]; other site 469607005993 Switch I region; other site 469607005994 G2 box; other site 469607005995 Switch II region; other site 469607005996 G3 box; other site 469607005997 G4 box; other site 469607005998 G5 box; other site 469607005999 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 469607006000 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 469607006001 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 469607006002 G-X-X-G motif; other site 469607006003 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 469607006004 RxxxH motif; other site 469607006005 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 469607006006 Haemolytic domain; Region: Haemolytic; pfam01809 469607006007 Ribonuclease P; Region: Ribonuclease_P; pfam00825 469607006008 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399