-- dump date 20140619_150201 -- class Genbank::misc_feature -- table misc_feature_note -- id note 548479000001 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 548479000002 putative active cleft [active] 548479000003 dimerization interface [polypeptide binding]; other site 548479000004 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 548479000005 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 548479000006 pyridoxal 5'-phosphate binding site [chemical binding]; other site 548479000007 catalytic residue [active] 548479000008 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 548479000009 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 548479000010 GatB domain; Region: GatB_Yqey; smart00845 548479000011 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 548479000012 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 548479000013 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 548479000014 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 548479000015 PLD-like domain; Region: PLDc_2; pfam13091 548479000016 putative active site [active] 548479000017 catalytic site [active] 548479000018 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 548479000019 PLD-like domain; Region: PLDc_2; pfam13091 548479000020 putative active site [active] 548479000021 catalytic site [active] 548479000022 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 548479000023 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 548479000024 nucleotide binding pocket [chemical binding]; other site 548479000025 K-X-D-G motif; other site 548479000026 catalytic site [active] 548479000027 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 548479000028 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 548479000029 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 548479000030 Dimer interface [polypeptide binding]; other site 548479000031 DJ-1 family protein; Region: not_thiJ; TIGR01383 548479000032 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 548479000033 conserved cys residue [active] 548479000034 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 548479000035 Transcription factor WhiB; Region: Whib; pfam02467 548479000036 Signal transduction histidine kinase; Region: H_kinase_N; pfam12282 548479000037 PAS fold; Region: PAS_4; pfam08448 548479000038 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 548479000039 Histidine kinase; Region: HisKA_2; pfam07568 548479000040 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 548479000041 ATP binding site [chemical binding]; other site 548479000042 Mg2+ binding site [ion binding]; other site 548479000043 G-X-G motif; other site 548479000044 Protein of unknown function (DUF2505); Region: DUF2505; pfam10698 548479000045 thymidylate synthase; Reviewed; Region: thyA; PRK01827 548479000046 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 548479000047 dimerization interface [polypeptide binding]; other site 548479000048 active site 548479000049 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 548479000050 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 548479000051 folate binding site [chemical binding]; other site 548479000052 NADP+ binding site [chemical binding]; other site 548479000053 succinic semialdehyde dehydrogenase; Reviewed; Region: gabD2; PRK09407 548479000054 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 548479000055 NAD(P) binding site [chemical binding]; other site 548479000056 catalytic residues [active] 548479000057 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 548479000058 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 548479000059 active site 548479000060 HIGH motif; other site 548479000061 dimer interface [polypeptide binding]; other site 548479000062 KMSKS motif; other site 548479000063 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 548479000064 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 548479000065 Predicted membrane protein [Function unknown]; Region: COG1297 548479000066 putative oligopeptide transporter, OPT family; Region: TIGR00733 548479000067 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 548479000068 active site 548479000069 8-oxo-dGMP binding site [chemical binding]; other site 548479000070 nudix motif; other site 548479000071 metal binding site [ion binding]; metal-binding site 548479000072 argininosuccinate lyase; Provisional; Region: PRK00855 548479000073 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 548479000074 active sites [active] 548479000075 tetramer interface [polypeptide binding]; other site 548479000076 argininosuccinate synthase; Provisional; Region: PRK13820 548479000077 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 548479000078 ANP binding site [chemical binding]; other site 548479000079 Substrate Binding Site II [chemical binding]; other site 548479000080 Substrate Binding Site I [chemical binding]; other site 548479000081 arginine repressor; Provisional; Region: PRK03341 548479000082 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 548479000083 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 548479000084 acetylornithine aminotransferase; Provisional; Region: argD; PRK03244 548479000085 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 548479000086 inhibitor-cofactor binding pocket; inhibition site 548479000087 pyridoxal 5'-phosphate binding site [chemical binding]; other site 548479000088 catalytic residue [active] 548479000089 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 548479000090 feedback inhibition sensing region; other site 548479000091 homohexameric interface [polypeptide binding]; other site 548479000092 nucleotide binding site [chemical binding]; other site 548479000093 N-acetyl-L-glutamate binding site [chemical binding]; other site 548479000094 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 548479000095 heterotetramer interface [polypeptide binding]; other site 548479000096 active site pocket [active] 548479000097 cleavage site 548479000098 TM2 domain; Region: TM2; pfam05154 548479000099 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 548479000100 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 548479000101 Domain of unknown function (DUF1287); Region: DUF1287; cl01519 548479000102 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 548479000103 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 548479000104 putative tRNA-binding site [nucleotide binding]; other site 548479000105 B3/4 domain; Region: B3_4; pfam03483 548479000106 tRNA synthetase B5 domain; Region: B5; smart00874 548479000107 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 548479000108 dimer interface [polypeptide binding]; other site 548479000109 motif 1; other site 548479000110 motif 3; other site 548479000111 motif 2; other site 548479000112 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 548479000113 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 548479000114 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 548479000115 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 548479000116 dimer interface [polypeptide binding]; other site 548479000117 motif 1; other site 548479000118 active site 548479000119 motif 2; other site 548479000120 motif 3; other site 548479000121 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 548479000122 dimer interface [polypeptide binding]; other site 548479000123 putative CheW interface [polypeptide binding]; other site 548479000124 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 548479000125 YwiC-like protein; Region: YwiC; pfam14256 548479000126 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 548479000127 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 548479000128 Peptidase family C69; Region: Peptidase_C69; pfam03577 548479000129 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 548479000130 oligomerization interface [polypeptide binding]; other site 548479000131 active site 548479000132 metal binding site [ion binding]; metal-binding site 548479000133 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 548479000134 active site 548479000135 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 548479000136 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 548479000137 nucleotide binding site [chemical binding]; other site 548479000138 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 548479000139 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 548479000140 Uncharacterized conserved protein [Function unknown]; Region: COG0327 548479000141 AMP-binding enzyme; Region: AMP-binding; pfam00501 548479000142 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 548479000143 acyl-activating enzyme (AAE) consensus motif; other site 548479000144 AMP binding site [chemical binding]; other site 548479000145 active site 548479000146 CoA binding site [chemical binding]; other site 548479000147 lipoyl synthase; Provisional; Region: PRK05481 548479000148 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 548479000149 FeS/SAM binding site; other site 548479000150 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK07843 548479000151 Phosphagen (guanidino) kinases; Region: phosphagen_kinases; cl02823 548479000152 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 548479000153 FtsX-like permease family; Region: FtsX; pfam02687 548479000154 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 548479000155 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 548479000156 Walker A/P-loop; other site 548479000157 ATP binding site [chemical binding]; other site 548479000158 Q-loop/lid; other site 548479000159 ABC transporter signature motif; other site 548479000160 Walker B; other site 548479000161 D-loop; other site 548479000162 H-loop/switch region; other site 548479000163 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 548479000164 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 548479000165 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 548479000166 active site 548479000167 phosphorylation site [posttranslational modification] 548479000168 intermolecular recognition site; other site 548479000169 dimerization interface [polypeptide binding]; other site 548479000170 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 548479000171 DNA binding residues [nucleotide binding] 548479000172 dimerization interface [polypeptide binding]; other site 548479000173 YibE/F-like protein; Region: YibE_F; pfam07907 548479000174 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 548479000175 active site 548479000176 DNA binding site [nucleotide binding] 548479000177 Int/Topo IB signature motif; other site 548479000178 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 548479000179 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 548479000180 P-loop; other site 548479000181 Magnesium ion binding site [ion binding]; other site 548479000182 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 548479000183 Magnesium ion binding site [ion binding]; other site 548479000184 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 548479000185 catalytic residues [active] 548479000186 Uncharacterized virulence-associated protein D [Function unknown]; Region: VapD; COG3309 548479000187 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 548479000188 Fic/DOC family; Region: Fic; cl00960 548479000189 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 548479000190 Protein of unknown function (DUF3801); Region: DUF3801; pfam12687 548479000191 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 548479000192 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 548479000193 Walker A motif; other site 548479000194 ATP binding site [chemical binding]; other site 548479000195 Walker B motif; other site 548479000196 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 548479000197 Peptidase family M23; Region: Peptidase_M23; pfam01551 548479000198 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 548479000199 AAA-like domain; Region: AAA_10; pfam12846 548479000200 Domain of unknown function DUF87; Region: DUF87; pfam01935 548479000201 PrgI family protein; Region: PrgI; pfam12666 548479000202 Helix-turn-helix domain; Region: HTH_36; pfam13730 548479000203 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 548479000204 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 548479000205 DNA binding residues [nucleotide binding] 548479000206 Uncharacterized protein family (UPF0182); Region: UPF0182; pfam03699 548479000207 Uncharacterized conserved protein [Function unknown]; Region: COG1615 548479000208 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 548479000209 Part of AAA domain; Region: AAA_19; pfam13245 548479000210 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 548479000211 Family description; Region: UvrD_C_2; pfam13538 548479000212 uncharacterized protein, coenzyme F420 biosynthesis associated; Region: DUF2342_F420; TIGR03883 548479000213 Uncharacterized conserved protein (DUF2342); Region: DUF2342; pfam10103 548479000214 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 548479000215 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 548479000216 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 548479000217 ribonuclease PH; Reviewed; Region: rph; PRK00173 548479000218 Ribonuclease PH; Region: RNase_PH_bact; cd11362 548479000219 hexamer interface [polypeptide binding]; other site 548479000220 active site 548479000221 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 548479000222 active site 548479000223 dimerization interface [polypeptide binding]; other site 548479000224 glutamate racemase; Provisional; Region: PRK00865 548479000225 Domain of unknown function (DUF2017); Region: DUF2017; pfam09438 548479000226 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 548479000227 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 548479000228 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 548479000229 active site 548479000230 Protein of unknown function (DUF3039); Region: DUF3039; pfam11238 548479000231 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 548479000232 IHF dimer interface [polypeptide binding]; other site 548479000233 IHF - DNA interface [nucleotide binding]; other site 548479000234 WGR domain; Region: WGR; cl01581 548479000235 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 548479000236 Na2 binding site [ion binding]; other site 548479000237 putative substrate binding site 1 [chemical binding]; other site 548479000238 Na binding site 1 [ion binding]; other site 548479000239 putative substrate binding site 2 [chemical binding]; other site 548479000240 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 548479000241 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 548479000242 Walker A/P-loop; other site 548479000243 ATP binding site [chemical binding]; other site 548479000244 Q-loop/lid; other site 548479000245 ABC transporter signature motif; other site 548479000246 Walker B; other site 548479000247 D-loop; other site 548479000248 H-loop/switch region; other site 548479000249 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 548479000250 FtsX-like permease family; Region: FtsX; pfam02687 548479000251 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 548479000252 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 548479000253 FtsX-like permease family; Region: FtsX; pfam02687 548479000254 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 548479000255 Sortase C (SrtC) or subfamily-3 sortases are membrane cysteine transpeptidases found in Gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_C_3; cd05827 548479000256 active site 548479000257 catalytic site [active] 548479000258 isocitrate dehydrogenase; Validated; Region: PRK08299 548479000259 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 548479000260 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 548479000261 acyl-activating enzyme (AAE) consensus motif; other site 548479000262 putative AMP binding site [chemical binding]; other site 548479000263 putative active site [active] 548479000264 putative CoA binding site [chemical binding]; other site 548479000265 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 548479000266 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 548479000267 purine monophosphate binding site [chemical binding]; other site 548479000268 dimer interface [polypeptide binding]; other site 548479000269 putative catalytic residues [active] 548479000270 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 548479000271 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 548479000272 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 548479000273 active site 548479000274 substrate binding site [chemical binding]; other site 548479000275 cosubstrate binding site; other site 548479000276 catalytic site [active] 548479000277 galactoside O-acetyltransferase; Reviewed; Region: lacA; PRK09527 548479000278 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 548479000279 CoA binding domain; Region: CoA_binding; smart00881 548479000280 CoA-ligase; Region: Ligase_CoA; pfam00549 548479000281 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 548479000282 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 548479000283 CoA-ligase; Region: Ligase_CoA; pfam00549 548479000284 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 548479000285 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 548479000286 Part of AAA domain; Region: AAA_19; pfam13245 548479000287 Family description; Region: UvrD_C_2; pfam13538 548479000288 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 548479000289 Asp-box motif; other site 548479000290 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 548479000291 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 548479000292 active site 548479000293 phosphorylation site [posttranslational modification] 548479000294 intermolecular recognition site; other site 548479000295 dimerization interface [polypeptide binding]; other site 548479000296 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 548479000297 DNA binding residues [nucleotide binding] 548479000298 dimerization interface [polypeptide binding]; other site 548479000299 PspC domain; Region: PspC; cl00864 548479000300 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 548479000301 ATP binding site [chemical binding]; other site 548479000302 Mg2+ binding site [ion binding]; other site 548479000303 G-X-G motif; other site 548479000304 PspC domain; Region: PspC; pfam04024 548479000305 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 548479000306 guanosine pentaphosphate synthetase I/polynucleotide phosphorylase; Region: pppGpp_PNP; TIGR02696 548479000307 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 548479000308 oligomer interface [polypeptide binding]; other site 548479000309 RNA binding site [nucleotide binding]; other site 548479000310 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 548479000311 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 548479000312 RNase E interface [polypeptide binding]; other site 548479000313 trimer interface [polypeptide binding]; other site 548479000314 active site 548479000315 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 548479000316 putative nucleic acid binding region [nucleotide binding]; other site 548479000317 G-X-X-G motif; other site 548479000318 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 548479000319 RNA binding site [nucleotide binding]; other site 548479000320 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 548479000321 16S/18S rRNA binding site [nucleotide binding]; other site 548479000322 S13e-L30e interaction site [polypeptide binding]; other site 548479000323 25S rRNA binding site [nucleotide binding]; other site 548479000324 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 548479000325 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 548479000326 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 548479000327 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 548479000328 active site 548479000329 Riboflavin kinase; Region: Flavokinase; pfam01687 548479000330 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 548479000331 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 548479000332 putative active site [active] 548479000333 putative metal binding site [ion binding]; other site 548479000334 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 548479000335 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 548479000336 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 548479000337 cleavage site 548479000338 active site 548479000339 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479000340 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479000341 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479000342 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK03287 548479000343 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 548479000344 RNA binding site [nucleotide binding]; other site 548479000345 active site 548479000346 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 548479000347 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 548479000348 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 548479000349 translation initiation factor IF-2; Region: IF-2; TIGR00487 548479000350 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 548479000351 G1 box; other site 548479000352 putative GEF interaction site [polypeptide binding]; other site 548479000353 GTP/Mg2+ binding site [chemical binding]; other site 548479000354 Switch I region; other site 548479000355 G2 box; other site 548479000356 G3 box; other site 548479000357 Switch II region; other site 548479000358 G4 box; other site 548479000359 G5 box; other site 548479000360 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 548479000361 Translation-initiation factor 2; Region: IF-2; pfam11987 548479000362 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 548479000363 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479000364 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479000365 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 548479000366 N-acetyl-D-glucosamine binding site [chemical binding]; other site 548479000367 catalytic residue [active] 548479000368 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 548479000369 NusA N-terminal domain; Region: NusA_N; pfam08529 548479000370 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 548479000371 RNA binding site [nucleotide binding]; other site 548479000372 homodimer interface [polypeptide binding]; other site 548479000373 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 548479000374 G-X-X-G motif; other site 548479000375 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 548479000376 G-X-X-G motif; other site 548479000377 ribosome maturation protein RimP; Reviewed; Region: PRK00092 548479000378 Sm and related proteins; Region: Sm_like; cl00259 548479000379 heptamer interface [polypeptide binding]; other site 548479000380 Sm1 motif; other site 548479000381 hexamer interface [polypeptide binding]; other site 548479000382 RNA binding site [nucleotide binding]; other site 548479000383 Sm2 motif; other site 548479000384 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 548479000385 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 548479000386 Walker A/P-loop; other site 548479000387 ATP binding site [chemical binding]; other site 548479000388 Q-loop/lid; other site 548479000389 ABC transporter signature motif; other site 548479000390 Walker B; other site 548479000391 D-loop; other site 548479000392 H-loop/switch region; other site 548479000393 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 548479000394 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 548479000395 FtsX-like permease family; Region: FtsX; pfam02687 548479000396 FtsX-like permease family; Region: FtsX; pfam02687 548479000397 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 548479000398 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 548479000399 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 548479000400 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 548479000401 Type II/IV secretion system protein; Region: T2SE; pfam00437 548479000402 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 548479000403 ATP binding site [chemical binding]; other site 548479000404 Walker A motif; other site 548479000405 hexamer interface [polypeptide binding]; other site 548479000406 Walker B motif; other site 548479000407 Phosphotransferase enzyme family; Region: APH; pfam01636 548479000408 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 548479000409 substrate binding site [chemical binding]; other site 548479000410 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 548479000411 Part of AAA domain; Region: AAA_19; pfam13245 548479000412 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 548479000413 Part of AAA domain; Region: AAA_19; pfam13245 548479000414 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 548479000415 Protein of unknown function (DUF3107); Region: DUF3107; pfam11305 548479000416 tRNA-(MS[2]IO[6]A)-hydroxylase (MiaE)-like; Region: MiaE_2; pfam13794 548479000417 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479000418 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479000419 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479000420 helicase 45; Provisional; Region: PTZ00424 548479000421 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 548479000422 ATP binding site [chemical binding]; other site 548479000423 Mg++ binding site [ion binding]; other site 548479000424 motif III; other site 548479000425 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 548479000426 nucleotide binding region [chemical binding]; other site 548479000427 ATP-binding site [chemical binding]; other site 548479000428 Aminopeptidase P, N-terminal domain; Region: AMP_N; smart01011 548479000429 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 548479000430 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 548479000431 active site 548479000432 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 548479000433 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 548479000434 active site 548479000435 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 548479000436 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 548479000437 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 548479000438 active site 548479000439 catalytic triad [active] 548479000440 oxyanion hole [active] 548479000441 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 548479000442 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 548479000443 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 548479000444 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 548479000445 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 548479000446 S-adenosylmethionine binding site [chemical binding]; other site 548479000447 Protein of unknown function (DUF3117); Region: DUF3117; pfam11314 548479000448 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 548479000449 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 548479000450 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 548479000451 active site 548479000452 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 548479000453 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 548479000454 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 548479000455 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 548479000456 putative active site [active] 548479000457 putative catalytic site [active] 548479000458 putative DNA binding site [nucleotide binding]; other site 548479000459 putative phosphate binding site [ion binding]; other site 548479000460 metal binding site A [ion binding]; metal-binding site 548479000461 putative AP binding site [nucleotide binding]; other site 548479000462 putative metal binding site B [ion binding]; other site 548479000463 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14193 548479000464 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 548479000465 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 548479000466 homodimer interface [polypeptide binding]; other site 548479000467 NADP binding site [chemical binding]; other site 548479000468 substrate binding site [chemical binding]; other site 548479000469 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 548479000470 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 548479000471 dimer interface [polypeptide binding]; other site 548479000472 active site 548479000473 glycine-pyridoxal phosphate binding site [chemical binding]; other site 548479000474 folate binding site [chemical binding]; other site 548479000475 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 548479000476 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 548479000477 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 548479000478 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 548479000479 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 548479000480 N-terminal domain of the actinomycetal Nei1 and related DNA glycosylases; Region: AcNei1_N; cd08970 548479000481 putative DNA binding site [nucleotide binding]; other site 548479000482 catalytic residue [active] 548479000483 putative H2TH interface [polypeptide binding]; other site 548479000484 putative catalytic residues [active] 548479000485 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 548479000486 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 548479000487 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 548479000488 Amidohydrolase; Region: Amidohydro_4; pfam13147 548479000489 active site 548479000490 signal recognition particle protein; Provisional; Region: PRK10867 548479000491 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 548479000492 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 548479000493 P loop; other site 548479000494 GTP binding site [chemical binding]; other site 548479000495 Signal peptide binding domain; Region: SRP_SPB; pfam02978 548479000496 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 548479000497 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 548479000498 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 548479000499 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 548479000500 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 548479000501 Walker A/P-loop; other site 548479000502 ATP binding site [chemical binding]; other site 548479000503 Protein of unknown function (DUF3422); Region: DUF3422; cl02073 548479000504 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; pfam06470 548479000505 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 548479000506 ABC transporter signature motif; other site 548479000507 Walker B; other site 548479000508 D-loop; other site 548479000509 H-loop/switch region; other site 548479000510 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 548479000511 active site 548479000512 multimer interface [polypeptide binding]; other site 548479000513 DAK2 domain; Region: Dak2; cl03685 548479000514 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 548479000515 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 548479000516 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 548479000517 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 548479000518 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 548479000519 Coenzyme A binding pocket [chemical binding]; other site 548479000520 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 548479000521 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 548479000522 active site 548479000523 Zn binding site [ion binding]; other site 548479000524 aminopeptidase N, Streptomyces lividans type; Region: pepN_strep_liv; TIGR02412 548479000525 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_3; cd09602 548479000526 Zn binding site [ion binding]; other site 548479000527 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 548479000528 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 548479000529 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 548479000530 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 548479000531 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 548479000532 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 548479000533 ABC transporter; Region: ABC_tran_2; pfam12848 548479000534 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 548479000535 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 548479000536 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 548479000537 dimer interface [polypeptide binding]; other site 548479000538 ssDNA binding site [nucleotide binding]; other site 548479000539 tetramer (dimer of dimers) interface [polypeptide binding]; other site 548479000540 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 548479000541 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 548479000542 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 548479000543 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 548479000544 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 548479000545 catalytic site [active] 548479000546 putative active site [active] 548479000547 putative substrate binding site [chemical binding]; other site 548479000548 dimer interface [polypeptide binding]; other site 548479000549 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 548479000550 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 548479000551 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 548479000552 Sodium Bile acid symporter family; Region: SBF; pfam01758 548479000553 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 548479000554 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 548479000555 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 548479000556 diacylglycerol kinase; Reviewed; Region: PRK11914 548479000557 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 548479000558 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 548479000559 FAD binding domain; Region: FAD_binding_4; pfam01565 548479000560 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 548479000561 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 548479000562 Predicted membrane protein [Function unknown]; Region: COG1511 548479000563 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 548479000564 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 548479000565 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 548479000566 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 548479000567 active site 548479000568 nucleophile elbow; other site 548479000569 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 548479000570 Part of AAA domain; Region: AAA_19; pfam13245 548479000571 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 548479000572 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 548479000573 ABC transporter signature motif; other site 548479000574 Walker B; other site 548479000575 D-loop; other site 548479000576 H-loop/switch region; other site 548479000577 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 548479000578 putative active site [active] 548479000579 putative metal-binding site [ion binding]; other site 548479000580 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 548479000581 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 548479000582 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 548479000583 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 548479000584 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 548479000585 non-specific DNA binding site [nucleotide binding]; other site 548479000586 salt bridge; other site 548479000587 sequence-specific DNA binding site [nucleotide binding]; other site 548479000588 GMP synthase; Reviewed; Region: guaA; PRK00074 548479000589 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 548479000590 AMP/PPi binding site [chemical binding]; other site 548479000591 candidate oxyanion hole; other site 548479000592 catalytic triad [active] 548479000593 potential glutamine specificity residues [chemical binding]; other site 548479000594 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 548479000595 ATP Binding subdomain [chemical binding]; other site 548479000596 Ligand Binding sites [chemical binding]; other site 548479000597 Dimerization subdomain; other site 548479000598 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 548479000599 UTRA domain; Region: UTRA; pfam07702 548479000600 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 548479000601 Beta-N-acetylhexosaminidases of glycosyl hydrolase family 20 (GH20) catalyze the removal of beta-1,4-linked N-acetyl-D-hexosamine residues from the non-reducing ends of N-acetyl-beta-D-hexosaminides including N-acetylglucosides and N-acetylgalactosides; Region: GH20_hexosaminidase; cl02948 548479000602 active site 548479000603 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 548479000604 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 548479000605 dimer interface [polypeptide binding]; other site 548479000606 conserved gate region; other site 548479000607 putative PBP binding loops; other site 548479000608 ABC-ATPase subunit interface; other site 548479000609 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 548479000610 conserved gate region; other site 548479000611 Binding-protein-dependent transport system inner membrane component; Region: BPD_transp_1; pfam00528 548479000612 ABC-ATPase subunit interface; other site 548479000613 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 548479000614 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 548479000615 Lacto-N-biose phosphorylase; Region: Lact_bio_phlase; pfam09508 548479000616 1,3-beta-galactosyl-N-acetylhexosamine phosphorylase; Region: TIGR02336 548479000617 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 548479000618 propionate/acetate kinase; Provisional; Region: PRK12379 548479000619 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 548479000620 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 548479000621 putative DNA binding site [nucleotide binding]; other site 548479000622 putative Zn2+ binding site [ion binding]; other site 548479000623 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 548479000624 Major Facilitator Superfamily; Region: MFS_1; pfam07690 548479000625 putative substrate translocation pore; other site 548479000626 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 548479000627 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 548479000628 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 548479000629 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 548479000630 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 548479000631 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 548479000632 ligand binding site [chemical binding]; other site 548479000633 homodimer interface [polypeptide binding]; other site 548479000634 NAD(P) binding site [chemical binding]; other site 548479000635 trimer interface B [polypeptide binding]; other site 548479000636 trimer interface A [polypeptide binding]; other site 548479000637 fumarate hydratase; Provisional; Region: PRK15389 548479000638 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 548479000639 Fumarase C-terminus; Region: Fumerase_C; pfam05683 548479000640 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 548479000641 active site 548479000642 catalytic residue [active] 548479000643 dimer interface [polypeptide binding]; other site 548479000644 DNA primase, catalytic core; Region: dnaG; TIGR01391 548479000645 CHC2 zinc finger; Region: zf-CHC2; pfam01807 548479000646 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 548479000647 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 548479000648 active site 548479000649 metal binding site [ion binding]; metal-binding site 548479000650 interdomain interaction site; other site 548479000651 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 548479000652 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 548479000653 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK03007 548479000654 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 548479000655 Zn2+ binding site [ion binding]; other site 548479000656 Mg2+ binding site [ion binding]; other site 548479000657 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 548479000658 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 548479000659 FMN binding site [chemical binding]; other site 548479000660 active site 548479000661 catalytic residues [active] 548479000662 substrate binding site [chemical binding]; other site 548479000663 glycyl-tRNA synthetase; Provisional; Region: PRK04173 548479000664 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 548479000665 motif 1; other site 548479000666 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3...; Region: GlyRS-like_core; cd00774 548479000667 active site 548479000668 motif 2; other site 548479000669 motif 3; other site 548479000670 GlyRS Glycyl-anticodon binding domain. GlyRS 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: GlyRS_anticodon; cd00858 548479000671 anticodon binding site; other site 548479000672 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 548479000673 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 548479000674 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 548479000675 catalytic residue [active] 548479000676 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 548479000677 TPP-binding site [chemical binding]; other site 548479000678 dimer interface [polypeptide binding]; other site 548479000679 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 548479000680 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 548479000681 PYR/PP interface [polypeptide binding]; other site 548479000682 dimer interface [polypeptide binding]; other site 548479000683 TPP binding site [chemical binding]; other site 548479000684 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 548479000685 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 548479000686 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 548479000687 active site 548479000688 metal binding site [ion binding]; metal-binding site 548479000689 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 548479000690 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 548479000691 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 548479000692 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 548479000693 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 548479000694 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 548479000695 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 548479000696 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 548479000697 dimer interface [polypeptide binding]; other site 548479000698 conserved gate region; other site 548479000699 putative PBP binding loops; other site 548479000700 ABC-ATPase subunit interface; other site 548479000701 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 548479000702 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 548479000703 dimer interface [polypeptide binding]; other site 548479000704 conserved gate region; other site 548479000705 putative PBP binding loops; other site 548479000706 ABC-ATPase subunit interface; other site 548479000707 Melibiase; Region: Melibiase; pfam02065 548479000708 helix_turn_helix, Arsenical Resistance Operon Repressor; Region: HTH_ARSR; smart00418 548479000709 putative DNA binding site [nucleotide binding]; other site 548479000710 putative Zn2+ binding site [ion binding]; other site 548479000711 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 548479000712 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 548479000713 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cd09755 548479000714 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-E; cd09719 548479000715 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cd09727 548479000716 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 548479000717 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cd09645 548479000718 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 548479000719 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 548479000720 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-E; cl09608 548479000721 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 548479000722 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 548479000723 dimer interface [polypeptide binding]; other site 548479000724 conserved gate region; other site 548479000725 putative PBP binding loops; other site 548479000726 ABC-ATPase subunit interface; other site 548479000727 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 548479000728 dimer interface [polypeptide binding]; other site 548479000729 conserved gate region; other site 548479000730 putative PBP binding loops; other site 548479000731 ABC-ATPase subunit interface; other site 548479000732 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 548479000733 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 548479000734 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 548479000735 TraX protein; Region: TraX; cl05434 548479000736 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 548479000737 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 548479000738 dimer interface [polypeptide binding]; other site 548479000739 conserved gate region; other site 548479000740 putative PBP binding loops; other site 548479000741 ABC-ATPase subunit interface; other site 548479000742 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 548479000743 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 548479000744 dimer interface [polypeptide binding]; other site 548479000745 conserved gate region; other site 548479000746 putative PBP binding loops; other site 548479000747 ABC-ATPase subunit interface; other site 548479000748 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 548479000749 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 548479000750 trehalose synthase; Region: treS_nterm; TIGR02456 548479000751 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_2; cd11348 548479000752 active site 548479000753 catalytic site [active] 548479000754 malate dehydrogenase; Provisional; Region: PRK05442 548479000755 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 548479000756 NAD(P) binding site [chemical binding]; other site 548479000757 dimer interface [polypeptide binding]; other site 548479000758 malate binding site [chemical binding]; other site 548479000759 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 548479000760 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 548479000761 active site 548479000762 dimer interface [polypeptide binding]; other site 548479000763 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 548479000764 dimer interface [polypeptide binding]; other site 548479000765 active site 548479000766 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 548479000767 6-phosphofructokinase, eukaryotic type; Region: 6PF1K_euk; TIGR02478 548479000768 active site 548479000769 ADP/pyrophosphate binding site [chemical binding]; other site 548479000770 dimerization interface [polypeptide binding]; other site 548479000771 allosteric effector site; other site 548479000772 fructose-1,6-bisphosphate binding site; other site 548479000773 Memo (mediator of ErbB2-driven cell motility) is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility; Region: MEMO_like; cd07361 548479000774 putative ligand binding pocket/active site [active] 548479000775 putative metal binding site [ion binding]; other site 548479000776 AmmeMemoRadiSam system protein A; Region: AmmeMemoSam_A; TIGR04335 548479000777 AMMECR1; Region: AMMECR1; pfam01871 548479000778 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 548479000779 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 548479000780 Pup-ligase protein; Region: Pup_ligase; cl15463 548479000781 Pup-like protein; Region: Pup; cl05289 548479000782 Pup-ligase protein; Region: Pup_ligase; pfam03136 548479000783 proteasome ATPase; Region: pup_AAA; TIGR03689 548479000784 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 548479000785 Walker A motif; other site 548479000786 ATP binding site [chemical binding]; other site 548479000787 Walker B motif; other site 548479000788 arginine finger; other site 548479000789 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 548479000790 metabolite-proton symporter; Region: 2A0106; TIGR00883 548479000791 putative substrate translocation pore; other site 548479000792 Predicted permeases [General function prediction only]; Region: RarD; COG2962 548479000793 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 548479000794 Amidinotransferase; Region: Amidinotransf; cl12043 548479000795 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 548479000796 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 548479000797 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 548479000798 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 548479000799 L-aspartate oxidase; Provisional; Region: PRK06175 548479000800 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 548479000801 Succinate:quinone oxidoreductase (SQR)-like Type B subfamily 2, transmembrane subunit; composed of proteins with similarity to the SQRs of Geobacter metallireducens and Corynebacterium glutamicum. SQR catalyzes the oxidation of succinate to fumarate...; Region: SQR_TypeB_2_TM; cd03498 548479000802 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 548479000803 putative Iron-sulfur protein interface [polypeptide binding]; other site 548479000804 proximal heme binding site [chemical binding]; other site 548479000805 distal heme binding site [chemical binding]; other site 548479000806 putative dimer interface [polypeptide binding]; other site 548479000807 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 548479000808 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 548479000809 Coenzyme A binding pocket [chemical binding]; other site 548479000810 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 548479000811 Glycoprotease family; Region: Peptidase_M22; pfam00814 548479000812 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 548479000813 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 548479000814 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 548479000815 active site 548479000816 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 548479000817 dimer interface [polypeptide binding]; other site 548479000818 substrate binding site [chemical binding]; other site 548479000819 catalytic residues [active] 548479000820 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 548479000821 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 548479000822 putative substrate binding site [chemical binding]; other site 548479000823 putative ATP binding site [chemical binding]; other site 548479000824 pantothenate kinase; Provisional; Region: PRK05439 548479000825 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 548479000826 ATP-binding site [chemical binding]; other site 548479000827 CoA-binding site [chemical binding]; other site 548479000828 Mg2+-binding site [ion binding]; other site 548479000829 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 548479000830 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 548479000831 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 548479000832 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 548479000833 glutaminase active site [active] 548479000834 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 548479000835 dimer interface [polypeptide binding]; other site 548479000836 active site 548479000837 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 548479000838 dimer interface [polypeptide binding]; other site 548479000839 active site 548479000840 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14318 548479000841 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 548479000842 active site 548479000843 substrate binding site [chemical binding]; other site 548479000844 metal binding site [ion binding]; metal-binding site 548479000845 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 548479000846 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 548479000847 23S rRNA interface [nucleotide binding]; other site 548479000848 L3 interface [polypeptide binding]; other site 548479000849 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 548479000850 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 548479000851 FeS/SAM binding site; other site 548479000852 autonomous glycyl radical cofactor GrcA; Provisional; Region: PRK11127 548479000853 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 548479000854 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 548479000855 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; pfam00596 548479000856 intersubunit interface [polypeptide binding]; other site 548479000857 active site 548479000858 Zn2+ binding site [ion binding]; other site 548479000859 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 548479000860 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 548479000861 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 548479000862 catalytic residue [active] 548479000863 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 548479000864 uncharacterized xylulose kinase-like proteins; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_2; cd07805 548479000865 N- and C-terminal domain interface [polypeptide binding]; other site 548479000866 active site 548479000867 MgATP binding site [chemical binding]; other site 548479000868 catalytic site [active] 548479000869 metal binding site [ion binding]; metal-binding site 548479000870 xylulose binding site [chemical binding]; other site 548479000871 putative homodimer interface [polypeptide binding]; other site 548479000872 Predicted membrane protein [Function unknown]; Region: COG2246 548479000873 GtrA-like protein; Region: GtrA; pfam04138 548479000874 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 548479000875 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 548479000876 dimerization interface 3.5A [polypeptide binding]; other site 548479000877 active site 548479000878 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 548479000879 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 548479000880 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 548479000881 alphaNTD - beta interaction site [polypeptide binding]; other site 548479000882 alphaNTD homodimer interface [polypeptide binding]; other site 548479000883 alphaNTD - beta' interaction site [polypeptide binding]; other site 548479000884 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 548479000885 30S ribosomal protein S11; Validated; Region: PRK05309 548479000886 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 548479000887 30S ribosomal protein S13; Region: bact_S13; TIGR03631 548479000888 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 548479000889 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 548479000890 rRNA binding site [nucleotide binding]; other site 548479000891 predicted 30S ribosome binding site; other site 548479000892 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 548479000893 Catalytic site [active] 548479000894 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 548479000895 active site 548479000896 adenylate kinase; Reviewed; Region: adk; PRK00279 548479000897 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 548479000898 AMP-binding site [chemical binding]; other site 548479000899 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 548479000900 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 548479000901 SecY translocase; Region: SecY; pfam00344 548479000902 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 548479000903 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 548479000904 23S rRNA binding site [nucleotide binding]; other site 548479000905 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 548479000906 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 548479000907 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 548479000908 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 548479000909 L5 interface [polypeptide binding]; other site 548479000910 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 548479000911 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 548479000912 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 548479000913 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 548479000914 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 548479000915 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 548479000916 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 548479000917 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 548479000918 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 548479000919 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 548479000920 RNA binding site [nucleotide binding]; other site 548479000921 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 548479000922 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeD; cd03379 548479000923 active site clefts [active] 548479000924 zinc binding site [ion binding]; other site 548479000925 dimer interface [polypeptide binding]; other site 548479000926 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 548479000927 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 548479000928 Walker A/P-loop; other site 548479000929 ATP binding site [chemical binding]; other site 548479000930 Q-loop/lid; other site 548479000931 ABC transporter signature motif; other site 548479000932 Walker B; other site 548479000933 D-loop; other site 548479000934 H-loop/switch region; other site 548479000935 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 548479000936 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 548479000937 intersubunit interface [polypeptide binding]; other site 548479000938 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 548479000939 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 548479000940 ABC-ATPase subunit interface; other site 548479000941 dimer interface [polypeptide binding]; other site 548479000942 putative PBP binding regions; other site 548479000943 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 548479000944 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 548479000945 Walker A/P-loop; other site 548479000946 ATP binding site [chemical binding]; other site 548479000947 Q-loop/lid; other site 548479000948 ABC transporter signature motif; other site 548479000949 Walker B; other site 548479000950 D-loop; other site 548479000951 H-loop/switch region; other site 548479000952 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 548479000953 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 548479000954 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 548479000955 Walker A/P-loop; other site 548479000956 ATP binding site [chemical binding]; other site 548479000957 Q-loop/lid; other site 548479000958 ABC transporter signature motif; other site 548479000959 Walker B; other site 548479000960 D-loop; other site 548479000961 H-loop/switch region; other site 548479000962 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 548479000963 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 548479000964 pyridoxal 5'-phosphate binding site [chemical binding]; other site 548479000965 homodimer interface [polypeptide binding]; other site 548479000966 catalytic residue [active] 548479000967 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 548479000968 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 548479000969 23S rRNA interface [nucleotide binding]; other site 548479000970 putative translocon interaction site; other site 548479000971 signal recognition particle (SRP54) interaction site; other site 548479000972 L23 interface [polypeptide binding]; other site 548479000973 trigger factor interaction site; other site 548479000974 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 548479000975 23S rRNA interface [nucleotide binding]; other site 548479000976 5S rRNA interface [nucleotide binding]; other site 548479000977 putative antibiotic binding site [chemical binding]; other site 548479000978 L25 interface [polypeptide binding]; other site 548479000979 L27 interface [polypeptide binding]; other site 548479000980 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 548479000981 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 548479000982 G-X-X-G motif; other site 548479000983 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 548479000984 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 548479000985 putative translocon binding site; other site 548479000986 protein-rRNA interface [nucleotide binding]; other site 548479000987 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 548479000988 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 548479000989 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 548479000990 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 548479000991 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 548479000992 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 548479000993 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 548479000994 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 548479000995 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 548479000996 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 548479000997 Walker A/P-loop; other site 548479000998 ATP binding site [chemical binding]; other site 548479000999 Q-loop/lid; other site 548479001000 ABC transporter signature motif; other site 548479001001 Walker B; other site 548479001002 D-loop; other site 548479001003 H-loop/switch region; other site 548479001004 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 548479001005 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 548479001006 TM-ABC transporter signature motif; other site 548479001007 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 548479001008 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 548479001009 zinc binding site [ion binding]; other site 548479001010 putative ligand binding site [chemical binding]; other site 548479001011 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 548479001012 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 548479001013 NAD(P) binding site [chemical binding]; other site 548479001014 catalytic residues [active] 548479001015 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 548479001016 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 548479001017 NAD(P) binding site [chemical binding]; other site 548479001018 catalytic residues [active] 548479001019 elongation factor Tu; Reviewed; Region: PRK00049 548479001020 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 548479001021 G1 box; other site 548479001022 GEF interaction site [polypeptide binding]; other site 548479001023 GTP/Mg2+ binding site [chemical binding]; other site 548479001024 Switch I region; other site 548479001025 G2 box; other site 548479001026 G3 box; other site 548479001027 Switch II region; other site 548479001028 G4 box; other site 548479001029 G5 box; other site 548479001030 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 548479001031 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 548479001032 Antibiotic Binding Site [chemical binding]; other site 548479001033 elongation factor G; Reviewed; Region: PRK00007 548479001034 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 548479001035 G1 box; other site 548479001036 putative GEF interaction site [polypeptide binding]; other site 548479001037 GTP/Mg2+ binding site [chemical binding]; other site 548479001038 Switch I region; other site 548479001039 G2 box; other site 548479001040 G3 box; other site 548479001041 Switch II region; other site 548479001042 G4 box; other site 548479001043 G5 box; other site 548479001044 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 548479001045 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 548479001046 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 548479001047 30S ribosomal protein S7; Validated; Region: PRK05302 548479001048 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 548479001049 streptomycin interaction site [chemical binding]; other site 548479001050 23S rRNA interaction site [nucleotide binding]; other site 548479001051 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 548479001052 16S rRNA interaction site [nucleotide binding]; other site 548479001053 CAAX protease self-immunity; Region: Abi; pfam02517 548479001054 DNA integrity scanning protein DisA; Provisional; Region: PRK13482 548479001055 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 548479001056 DisA bacterial checkpoint controller linker region; Region: DisA-linker; pfam10635 548479001057 Protein of unknown function (DUF3180); Region: DUF3180; pfam11377 548479001058 Dihydroneopterin aldolase [Coenzyme metabolism]; Region: FolB; COG1539 548479001059 active site 548479001060 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 548479001061 catalytic center binding site [active] 548479001062 ATP binding site [chemical binding]; other site 548479001063 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 548479001064 dihydropteroate synthase; Region: DHPS; TIGR01496 548479001065 substrate binding pocket [chemical binding]; other site 548479001066 dimer interface [polypeptide binding]; other site 548479001067 inhibitor binding site; inhibition site 548479001068 GTP cyclohydrolase I; Provisional; Region: PLN03044 548479001069 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 548479001070 active site 548479001071 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 548479001072 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 548479001073 Walker A motif; other site 548479001074 ATP binding site [chemical binding]; other site 548479001075 Walker B motif; other site 548479001076 arginine finger; other site 548479001077 Peptidase family M41; Region: Peptidase_M41; pfam01434 548479001078 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 548479001079 active site 548479001080 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 548479001081 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 548479001082 Ligand Binding Site [chemical binding]; other site 548479001083 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 548479001084 NlpC/P60 family; Region: NLPC_P60; pfam00877 548479001085 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 548479001086 transcription termination factor Rho; Provisional; Region: PRK12608 548479001087 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 548479001088 RNA binding site [nucleotide binding]; other site 548479001089 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 548479001090 Walker A motif; other site 548479001091 ATP binding site [chemical binding]; other site 548479001092 Walker B motif; other site 548479001093 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 548479001094 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 548479001095 putative ligand binding site [chemical binding]; other site 548479001096 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 548479001097 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 548479001098 TM-ABC transporter signature motif; other site 548479001099 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 548479001100 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 548479001101 TM-ABC transporter signature motif; other site 548479001102 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 548479001103 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 548479001104 Walker A/P-loop; other site 548479001105 ATP binding site [chemical binding]; other site 548479001106 Q-loop/lid; other site 548479001107 ABC transporter signature motif; other site 548479001108 Walker B; other site 548479001109 D-loop; other site 548479001110 H-loop/switch region; other site 548479001111 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 548479001112 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 548479001113 Walker A/P-loop; other site 548479001114 ATP binding site [chemical binding]; other site 548479001115 Q-loop/lid; other site 548479001116 ABC transporter signature motif; other site 548479001117 Walker B; other site 548479001118 D-loop; other site 548479001119 H-loop/switch region; other site 548479001120 FOG: CBS domain [General function prediction only]; Region: COG0517 548479001121 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce...; Region: CBS_pair_ACT_assoc2; cd04585 548479001122 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 548479001123 homoserine kinase; Provisional; Region: PRK01212 548479001124 threonine synthase; Validated; Region: PRK06260 548479001125 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 548479001126 homodimer interface [polypeptide binding]; other site 548479001127 pyridoxal 5'-phosphate binding site [chemical binding]; other site 548479001128 catalytic residue [active] 548479001129 homoserine dehydrogenase; Provisional; Region: PRK06349 548479001130 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 548479001131 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 548479001132 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 548479001133 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 548479001134 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 548479001135 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 548479001136 active site 548479001137 HIGH motif; other site 548479001138 KMSK motif region; other site 548479001139 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 548479001140 tRNA binding surface [nucleotide binding]; other site 548479001141 anticodon binding site; other site 548479001142 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; cl15845 548479001143 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 548479001144 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 548479001145 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 548479001146 active site 548479001147 catalytic site [active] 548479001148 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 548479001149 Peptidase family M23; Region: Peptidase_M23; pfam01551 548479001150 Domain of unknown function DUF21; Region: DUF21; pfam01595 548479001151 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 548479001152 FOG: CBS domain [General function prediction only]; Region: COG0517 548479001153 Domain of unknown function DUF21; Region: DUF21; pfam01595 548479001154 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 548479001155 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 548479001156 Transporter associated domain; Region: CorC_HlyC; smart01091 548479001157 RNA polymerase sigma-70 factor, TIGR02947 family; Region: SigH_actino 548479001158 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 548479001159 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 548479001160 DNA binding residues [nucleotide binding] 548479001161 mycothiol system anti-sigma-R factor; Region: antisig_RsrA; cl15806 548479001162 alpha-ketoglutarate decarboxylase; Reviewed; Region: kgd; PRK12270 548479001163 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 548479001164 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 548479001165 TPP-binding site [chemical binding]; other site 548479001166 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 548479001167 dimer interface [polypeptide binding]; other site 548479001168 PYR/PP interface [polypeptide binding]; other site 548479001169 TPP binding site [chemical binding]; other site 548479001170 ribosome small subunit-dependent GTPase A; Region: TIGR00157 548479001171 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 548479001172 GTPase/Zn-binding domain interface [polypeptide binding]; other site 548479001173 GTP/Mg2+ binding site [chemical binding]; other site 548479001174 G4 box; other site 548479001175 G5 box; other site 548479001176 G1 box; other site 548479001177 Switch I region; other site 548479001178 G2 box; other site 548479001179 G3 box; other site 548479001180 Switch II region; other site 548479001181 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 548479001182 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats...; Region: EPT_RTPC-like; cl00288 548479001183 putative active site [active] 548479001184 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 548479001185 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 548479001186 active site 548479001187 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 548479001188 active site 548479001189 metal binding site [ion binding]; metal-binding site 548479001190 DNA binding site [nucleotide binding] 548479001191 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 548479001192 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 548479001193 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 548479001194 Walker A/P-loop; other site 548479001195 ATP binding site [chemical binding]; other site 548479001196 Q-loop/lid; other site 548479001197 ABC transporter signature motif; other site 548479001198 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 548479001199 ABC transporter signature motif; other site 548479001200 Walker B; other site 548479001201 D-loop; other site 548479001202 H-loop/switch region; other site 548479001203 AAA domain; Region: AAA_31; pfam13614 548479001204 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 548479001205 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 548479001206 Helix-turn-helix domain; Region: HTH_17; pfam12728 548479001207 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 548479001208 DEAD/DEAH box helicase; Region: DEAD; pfam00270 548479001209 ATP binding site [chemical binding]; other site 548479001210 putative Mg++ binding site [ion binding]; other site 548479001211 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 548479001212 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 548479001213 nucleotide binding region [chemical binding]; other site 548479001214 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 548479001215 30S subunit binding site; other site 548479001216 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 548479001217 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 548479001218 active site 548479001219 lipoprotein LpqB; Provisional; Region: PRK13614 548479001220 Sporulation and spore germination; Region: Germane; pfam10646 548479001221 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 548479001222 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 548479001223 dimerization interface [polypeptide binding]; other site 548479001224 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 548479001225 dimer interface [polypeptide binding]; other site 548479001226 phosphorylation site [posttranslational modification] 548479001227 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 548479001228 ATP binding site [chemical binding]; other site 548479001229 Mg2+ binding site [ion binding]; other site 548479001230 G-X-G motif; other site 548479001231 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 548479001232 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 548479001233 active site 548479001234 phosphorylation site [posttranslational modification] 548479001235 intermolecular recognition site; other site 548479001236 dimerization interface [polypeptide binding]; other site 548479001237 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 548479001238 DNA binding site [nucleotide binding] 548479001239 Membrane domain of glycerophosphoryl diester phosphodiesterase; Region: GPDPase_memb; cl01974 548479001240 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 548479001241 MoxR-like ATPases [General function prediction only]; Region: COG0714 548479001242 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 548479001243 Walker A motif; other site 548479001244 ATP binding site [chemical binding]; other site 548479001245 Walker B motif; other site 548479001246 arginine finger; other site 548479001247 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 548479001248 Protein of unknown function DUF58; Region: DUF58; pfam01882 548479001249 Minimal MMP-like domain found in a group of hypothetical proteins from alphaproteobacteria and actinobacteria; Region: MMP_TTHA0227_like_1; cd12954 548479001250 Protein of unknown function (DUF3499); Region: DUF3499; pfam12005 548479001251 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 548479001252 dimer interface [polypeptide binding]; other site 548479001253 substrate binding site [chemical binding]; other site 548479001254 metal binding sites [ion binding]; metal-binding site 548479001255 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 548479001256 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 548479001257 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 548479001258 homodimer interface [polypeptide binding]; other site 548479001259 substrate-cofactor binding pocket; other site 548479001260 pyridoxal 5'-phosphate binding site [chemical binding]; other site 548479001261 catalytic residue [active] 548479001262 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; cl00246 548479001263 FAD binding site [chemical binding]; other site 548479001264 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 548479001265 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 548479001266 THF binding site; other site 548479001267 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 548479001268 substrate binding site [chemical binding]; other site 548479001269 THF binding site; other site 548479001270 zinc-binding site [ion binding]; other site 548479001271 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 548479001272 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 548479001273 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 548479001274 pyruvate phosphate dikinase; Provisional; Region: PRK09279 548479001275 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 548479001276 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 548479001277 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 548479001278 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 548479001279 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 548479001280 Clp amino terminal domain; Region: Clp_N; pfam02861 548479001281 Clp amino terminal domain; Region: Clp_N; pfam02861 548479001282 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 548479001283 Walker A motif; other site 548479001284 ATP binding site [chemical binding]; other site 548479001285 Walker B motif; other site 548479001286 arginine finger; other site 548479001287 UvrB/uvrC motif; Region: UVR; pfam02151 548479001288 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 548479001289 Walker A motif; other site 548479001290 ATP binding site [chemical binding]; other site 548479001291 Walker B motif; other site 548479001292 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 548479001293 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 548479001294 putative active site [active] 548479001295 dimerization interface [polypeptide binding]; other site 548479001296 putative tRNAtyr binding site [nucleotide binding]; other site 548479001297 Protein of unknown function (DUF2516); Region: DUF2516; pfam10724 548479001298 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 548479001299 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 548479001300 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 548479001301 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 548479001302 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 548479001303 Diadenosine hexaphosphate (Ap6A) hydrolase is a member of the Nudix hydrolase superfamily. Ap6A hydrolase specifically hydrolyzes diadenosine polyphosphates, but not ATP or diadenosine triphosphate, and it generates ATP as the product. Ap6A, the most...; Region: Ap6A_hydrolase; cd03673 548479001304 active site 548479001305 Ap6A binding site [chemical binding]; other site 548479001306 nudix motif; other site 548479001307 metal binding site [ion binding]; metal-binding site 548479001308 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 548479001309 catalytic core [active] 548479001310 polyphosphate kinase; Provisional; Region: PRK05443 548479001311 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 548479001312 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 548479001313 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 548479001314 putative domain interface [polypeptide binding]; other site 548479001315 putative active site [active] 548479001316 catalytic site [active] 548479001317 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 548479001318 putative domain interface [polypeptide binding]; other site 548479001319 putative active site [active] 548479001320 catalytic site [active] 548479001321 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 548479001322 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4200 548479001323 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 548479001324 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4200 548479001325 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 548479001326 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 548479001327 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 548479001328 Walker A/P-loop; other site 548479001329 ATP binding site [chemical binding]; other site 548479001330 Q-loop/lid; other site 548479001331 ABC transporter signature motif; other site 548479001332 Walker B; other site 548479001333 D-loop; other site 548479001334 H-loop/switch region; other site 548479001335 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 548479001336 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 548479001337 active site 548479001338 phosphorylation site [posttranslational modification] 548479001339 intermolecular recognition site; other site 548479001340 dimerization interface [polypeptide binding]; other site 548479001341 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 548479001342 DNA binding site [nucleotide binding] 548479001343 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 548479001344 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 548479001345 dimer interface [polypeptide binding]; other site 548479001346 phosphorylation site [posttranslational modification] 548479001347 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 548479001348 ATP binding site [chemical binding]; other site 548479001349 Mg2+ binding site [ion binding]; other site 548479001350 G-X-G motif; other site 548479001351 Methyltransferase domain; Region: Methyltransf_26; pfam13659 548479001352 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 548479001353 Isochorismatase family; Region: Isochorismatase; pfam00857 548479001354 catalytic triad [active] 548479001355 metal binding site [ion binding]; metal-binding site 548479001356 conserved cis-peptide bond; other site 548479001357 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 548479001358 Mechanosensitive ion channel; Region: MS_channel; pfam00924 548479001359 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 548479001360 putative phosphate binding site [ion binding]; other site 548479001361 enolase; Provisional; Region: eno; PRK00077 548479001362 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 548479001363 dimer interface [polypeptide binding]; other site 548479001364 metal binding site [ion binding]; metal-binding site 548479001365 substrate binding pocket [chemical binding]; other site 548479001366 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 548479001367 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 548479001368 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 548479001369 ATP binding site [chemical binding]; other site 548479001370 putative Mg++ binding site [ion binding]; other site 548479001371 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 548479001372 nucleotide binding region [chemical binding]; other site 548479001373 ATP-binding site [chemical binding]; other site 548479001374 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 548479001375 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 548479001376 putative active site [active] 548479001377 catalytic residue [active] 548479001378 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 548479001379 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 548479001380 5S rRNA interface [nucleotide binding]; other site 548479001381 CTC domain interface [polypeptide binding]; other site 548479001382 L16 interface [polypeptide binding]; other site 548479001383 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 548479001384 dimer interface [polypeptide binding]; other site 548479001385 FMN binding site [chemical binding]; other site 548479001386 NADPH bind site [chemical binding]; other site 548479001387 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 548479001388 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK03092 548479001389 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 548479001390 active site 548479001391 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14352 548479001392 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 548479001393 Substrate binding site; other site 548479001394 Mg++ binding site; other site 548479001395 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 548479001396 active site 548479001397 substrate binding site [chemical binding]; other site 548479001398 CoA binding site [chemical binding]; other site 548479001399 MarR family; Region: MarR_2; cl17246 548479001400 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 548479001401 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK03188 548479001402 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 548479001403 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 548479001404 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 548479001405 Domain of unknown function (DUF348); Region: DUF348; pfam03990 548479001406 G5 domain; Region: G5; pfam07501 548479001407 Transglycosylase-like domain; Region: Transglycosylas; pfam06737 548479001408 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 548479001409 active site 548479001410 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 548479001411 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 548479001412 active site 548479001413 KMSKS motif; other site 548479001414 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 548479001415 tRNA binding surface [nucleotide binding]; other site 548479001416 anticodon binding site; other site 548479001417 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 548479001418 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 548479001419 Predicted methyltransferases [General function prediction only]; Region: COG0313 548479001420 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 548479001421 putative SAM binding site [chemical binding]; other site 548479001422 putative homodimer interface [polypeptide binding]; other site 548479001423 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 548479001424 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 548479001425 FeS/SAM binding site; other site 548479001426 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 548479001427 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 548479001428 putative active site [active] 548479001429 catalytic site [active] 548479001430 putative metal binding site [ion binding]; other site 548479001431 NAD-dependent deacetylase; Provisional; Region: PRK05333 548479001432 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 548479001433 CAMP factor (Cfa); Region: CAMP_factor; pfam07373 548479001434 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 548479001435 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 548479001436 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 548479001437 Walker A/P-loop; other site 548479001438 ATP binding site [chemical binding]; other site 548479001439 Q-loop/lid; other site 548479001440 ABC transporter signature motif; other site 548479001441 Walker B; other site 548479001442 D-loop; other site 548479001443 H-loop/switch region; other site 548479001444 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 548479001445 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK12554 548479001446 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 548479001447 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 548479001448 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 548479001449 putative NAD(P) binding site [chemical binding]; other site 548479001450 putative substrate binding site [chemical binding]; other site 548479001451 catalytic Zn binding site [ion binding]; other site 548479001452 structural Zn binding site [ion binding]; other site 548479001453 dimer interface [polypeptide binding]; other site 548479001454 Predicted membrane protein [Function unknown]; Region: COG2246 548479001455 GtrA-like protein; Region: GtrA; pfam04138 548479001456 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 548479001457 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 548479001458 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 548479001459 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 548479001460 dimer interface [polypeptide binding]; other site 548479001461 putative functional site; other site 548479001462 putative MPT binding site; other site 548479001463 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 548479001464 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 548479001465 active site 548479001466 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 548479001467 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 548479001468 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 548479001469 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 548479001470 Part of AAA domain; Region: AAA_19; pfam13245 548479001471 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 548479001472 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 548479001473 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 548479001474 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 548479001475 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 548479001476 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 548479001477 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 548479001478 NlpC/P60 family; Region: NLPC_P60; cl17555 548479001479 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 548479001480 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 548479001481 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 548479001482 phosphoserine aminotransferase; Provisional; Region: PRK03080 548479001483 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 548479001484 catalytic residue [active] 548479001485 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 548479001486 Protein of unknown function (DUF3027); Region: DUF3027; pfam11228 548479001487 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 548479001488 DNA-binding site [nucleotide binding]; DNA binding site 548479001489 RNA-binding motif; other site 548479001490 LabA_like proteins; Region: LabA_like; cd06167 548479001491 putative metal binding site [ion binding]; other site 548479001492 Uncharacterized conserved protein [Function unknown]; Region: COG1432 548479001493 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 548479001494 conserved cys residue [active] 548479001495 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 548479001496 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 548479001497 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 548479001498 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 548479001499 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 548479001500 DsrC like protein; Region: DsrC; cl01101 548479001501 DsrE/DsrF/DrsH-like family; Region: DrsE_2; cl17453 548479001502 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GpsA; COG0240 548479001503 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 548479001504 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 548479001505 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 548479001506 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 548479001507 DsrC like protein; Region: DsrC; pfam04358 548479001508 DsrE/DsrF/DrsH-like family; Region: DrsE_2; cl17453 548479001509 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 548479001510 active site 548479001511 HIGH motif; other site 548479001512 nucleotide binding site [chemical binding]; other site 548479001513 active site 548479001514 KMSKS motif; other site 548479001515 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 548479001516 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 548479001517 dimer interface [polypeptide binding]; other site 548479001518 putative anticodon binding site; other site 548479001519 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 548479001520 motif 1; other site 548479001521 dimer interface [polypeptide binding]; other site 548479001522 active site 548479001523 motif 2; other site 548479001524 motif 3; other site 548479001525 Pantoate-beta-alanine ligase; Region: PanC; cd00560 548479001526 pantoate--beta-alanine ligase; Region: panC; TIGR00018 548479001527 active site 548479001528 ATP-binding site [chemical binding]; other site 548479001529 pantoate-binding site; other site 548479001530 HXXH motif; other site 548479001531 Predicted membrane protein [Function unknown]; Region: COG3428 548479001532 Bacterial PH domain; Region: DUF304; pfam03703 548479001533 Bacterial PH domain; Region: DUF304; pfam03703 548479001534 Uncharacterized conserved protein [Function unknown]; Region: COG3402 548479001535 Rossmann-like domain; Region: Rossmann-like; pfam10727 548479001536 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 548479001537 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 548479001538 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 548479001539 active site 548479001540 phosphorylation site [posttranslational modification] 548479001541 intermolecular recognition site; other site 548479001542 dimerization interface [polypeptide binding]; other site 548479001543 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 548479001544 DNA binding site [nucleotide binding] 548479001545 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 548479001546 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 548479001547 dimerization interface [polypeptide binding]; other site 548479001548 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 548479001549 dimer interface [polypeptide binding]; other site 548479001550 phosphorylation site [posttranslational modification] 548479001551 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 548479001552 ATP binding site [chemical binding]; other site 548479001553 Mg2+ binding site [ion binding]; other site 548479001554 G-X-G motif; other site 548479001555 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4339 548479001556 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 548479001557 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 548479001558 ring oligomerisation interface [polypeptide binding]; other site 548479001559 ATP/Mg binding site [chemical binding]; other site 548479001560 stacking interactions; other site 548479001561 hinge regions; other site 548479001562 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 548479001563 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 548479001564 ligand binding site [chemical binding]; other site 548479001565 active site 548479001566 UGI interface [polypeptide binding]; other site 548479001567 catalytic site [active] 548479001568 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK07896 548479001569 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 548479001570 dimerization interface [polypeptide binding]; other site 548479001571 active site 548479001572 L-aspartate oxidase; Provisional; Region: PRK06175 548479001573 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 548479001574 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 548479001575 quinolinate synthetase; Provisional; Region: PRK09375 548479001576 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 548479001577 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 548479001578 active site 548479001579 ATP binding site [chemical binding]; other site 548479001580 substrate binding site [chemical binding]; other site 548479001581 activation loop (A-loop); other site 548479001582 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 548479001583 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 548479001584 Walker A/P-loop; other site 548479001585 ATP binding site [chemical binding]; other site 548479001586 Q-loop/lid; other site 548479001587 ABC transporter signature motif; other site 548479001588 Walker B; other site 548479001589 D-loop; other site 548479001590 H-loop/switch region; other site 548479001591 TOBE domain; Region: TOBE_2; pfam08402 548479001592 Putative Ig domain; Region: He_PIG; pfam05345 548479001593 Putative Ig domain; Region: He_PIG; pfam05345 548479001594 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479001595 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479001596 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479001597 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 548479001598 putative catalytic site [active] 548479001599 putative metal binding site [ion binding]; other site 548479001600 putative phosphate binding site [ion binding]; other site 548479001601 UMP phosphatase; Provisional; Region: PRK10444 548479001602 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 548479001603 active site 548479001604 motif I; other site 548479001605 motif II; other site 548479001606 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 548479001607 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 548479001608 classical (c) SDRs; Region: SDR_c; cd05233 548479001609 NAD(P) binding site [chemical binding]; other site 548479001610 active site 548479001611 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 548479001612 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 548479001613 Walker A/P-loop; other site 548479001614 ATP binding site [chemical binding]; other site 548479001615 Q-loop/lid; other site 548479001616 ABC transporter signature motif; other site 548479001617 Walker B; other site 548479001618 D-loop; other site 548479001619 H-loop/switch region; other site 548479001620 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 548479001621 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 548479001622 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 548479001623 ligand binding site [chemical binding]; other site 548479001624 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 548479001625 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 548479001626 TM-ABC transporter signature motif; other site 548479001627 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 548479001628 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 548479001629 nucleotide binding site [chemical binding]; other site 548479001630 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 548479001631 non-specific DNA interactions [nucleotide binding]; other site 548479001632 DNA binding site [nucleotide binding] 548479001633 sequence specific DNA binding site [nucleotide binding]; other site 548479001634 putative cAMP binding site [chemical binding]; other site 548479001635 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 548479001636 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 548479001637 nucleotide binding site [chemical binding]; other site 548479001638 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 548479001639 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 548479001640 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cl17181 548479001641 active site 548479001642 intersubunit interface [polypeptide binding]; other site 548479001643 zinc binding site [ion binding]; other site 548479001644 Na+ binding site [ion binding]; other site 548479001645 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 548479001646 active site 548479001647 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 548479001648 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 548479001649 Beta-lactamase; Region: Beta-lactamase; pfam00144 548479001650 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 548479001651 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 548479001652 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 548479001653 Clp amino terminal domain; Region: Clp_N; pfam02861 548479001654 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 548479001655 Walker A motif; other site 548479001656 ATP binding site [chemical binding]; other site 548479001657 Walker B motif; other site 548479001658 arginine finger; other site 548479001659 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 548479001660 Walker A motif; other site 548479001661 ATP binding site [chemical binding]; other site 548479001662 Walker B motif; other site 548479001663 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 548479001664 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 548479001665 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 548479001666 DNA binding residues [nucleotide binding] 548479001667 DnaJ-class molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: CbpA; COG2214 548479001668 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 548479001669 HSP70 interaction site [polypeptide binding]; other site 548479001670 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 548479001671 substrate binding site [polypeptide binding]; other site 548479001672 dimer interface [polypeptide binding]; other site 548479001673 GrpE; Region: GrpE; pfam01025 548479001674 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 548479001675 dimer interface [polypeptide binding]; other site 548479001676 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 548479001677 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 548479001678 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 548479001679 nucleotide binding site [chemical binding]; other site 548479001680 NEF interaction site [polypeptide binding]; other site 548479001681 SBD interface [polypeptide binding]; other site 548479001682 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 548479001683 TrkA-N domain; Region: TrkA_N; pfam02254 548479001684 TrkA-C domain; Region: TrkA_C; pfam02080 548479001685 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 548479001686 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 548479001687 DNA binding domain, excisionase family; Region: excise; TIGR01764 548479001688 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 548479001689 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 548479001690 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 548479001691 motif II; other site 548479001692 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 548479001693 catalytic core [active] 548479001694 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3602 548479001695 ACT domain; Region: ACT_3; pfam10000 548479001696 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 548479001697 Galactose-1-phosphate uridylyltransferase [Energy production and conversion]; Region: GalT; COG1085 548479001698 Protein of unknown function (DUF4235); Region: DUF4235; pfam14019 548479001699 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 548479001700 trimer interface [polypeptide binding]; other site 548479001701 active site 548479001702 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 548479001703 Sortase C (SrtC) or subfamily-3 sortases are membrane cysteine transpeptidases found in Gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_C_3; cd05827 548479001704 active site 548479001705 catalytic site [active] 548479001706 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 548479001707 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 548479001708 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 548479001709 Walker A/P-loop; other site 548479001710 ATP binding site [chemical binding]; other site 548479001711 ABC transporter signature motif; other site 548479001712 Walker B; other site 548479001713 D-loop; other site 548479001714 H-loop/switch region; other site 548479001715 ABC transporter; Region: ABC_tran_2; pfam12848 548479001716 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 548479001717 Abi-like protein; Region: Abi_2; cl01988 548479001718 Virulence protein [General function prediction only]; Region: COG3943 548479001719 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 548479001720 TfoX C-terminal domain; Region: TfoX_C; pfam04994 548479001721 Radial spokehead-like protein; Region: Radial_spoke; pfam04712 548479001722 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 548479001723 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 548479001724 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 548479001725 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 548479001726 motif II; other site 548479001727 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 548479001728 minor groove reading motif; other site 548479001729 helix-hairpin-helix signature motif; other site 548479001730 active site 548479001731 Thiamine pyrophosphokinase; Region: TPK; cd07995 548479001732 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 548479001733 active site 548479001734 dimerization interface [polypeptide binding]; other site 548479001735 thiamine binding site [chemical binding]; other site 548479001736 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 548479001737 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 548479001738 Walker A/P-loop; other site 548479001739 ATP binding site [chemical binding]; other site 548479001740 Q-loop/lid; other site 548479001741 ABC transporter signature motif; other site 548479001742 Walker B; other site 548479001743 D-loop; other site 548479001744 H-loop/switch region; other site 548479001745 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 548479001746 Histidine kinase; Region: HisKA_3; pfam07730 548479001747 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 548479001748 ATP binding site [chemical binding]; other site 548479001749 Mg2+ binding site [ion binding]; other site 548479001750 G-X-G motif; other site 548479001751 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 548479001752 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 548479001753 active site 548479001754 phosphorylation site [posttranslational modification] 548479001755 intermolecular recognition site; other site 548479001756 dimerization interface [polypeptide binding]; other site 548479001757 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 548479001758 DNA binding residues [nucleotide binding] 548479001759 dimerization interface [polypeptide binding]; other site 548479001760 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 548479001761 S-adenosylmethionine binding site [chemical binding]; other site 548479001762 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 548479001763 Cupin domain; Region: Cupin_2; cl17218 548479001764 HflK protein; Region: hflK; TIGR01933 548479001765 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_4; cd03407 548479001766 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 548479001767 putative substrate translocation pore; other site 548479001768 Major Facilitator Superfamily; Region: MFS_1; pfam07690 548479001769 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 548479001770 pfkB family carbohydrate kinase; Region: PfkB; pfam00294 548479001771 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 548479001772 substrate binding site [chemical binding]; other site 548479001773 ATP binding site [chemical binding]; other site 548479001774 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 548479001775 BtpA family; Region: BtpA; cl00440 548479001776 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 548479001777 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 548479001778 Walker A/P-loop; other site 548479001779 ATP binding site [chemical binding]; other site 548479001780 Q-loop/lid; other site 548479001781 ABC transporter signature motif; other site 548479001782 Walker B; other site 548479001783 D-loop; other site 548479001784 H-loop/switch region; other site 548479001785 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 548479001786 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 548479001787 Walker A/P-loop; other site 548479001788 ATP binding site [chemical binding]; other site 548479001789 Q-loop/lid; other site 548479001790 ABC transporter signature motif; other site 548479001791 Walker B; other site 548479001792 D-loop; other site 548479001793 H-loop/switch region; other site 548479001794 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 548479001795 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 548479001796 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 548479001797 DNA-binding site [nucleotide binding]; DNA binding site 548479001798 UTRA domain; Region: UTRA; pfam07702 548479001799 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 548479001800 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 548479001801 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 548479001802 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 548479001803 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 548479001804 active site 548479001805 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 548479001806 nucleoside/Zn binding site; other site 548479001807 dimer interface [polypeptide binding]; other site 548479001808 catalytic motif [active] 548479001809 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 548479001810 S-ribosylhomocysteinase; Provisional; Region: PRK02260 548479001811 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 548479001812 catalytic residues [active] 548479001813 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 548479001814 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 548479001815 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 548479001816 Class I ribonucleotide reductase; Region: RNR_I; cd01679 548479001817 active site 548479001818 dimer interface [polypeptide binding]; other site 548479001819 catalytic residues [active] 548479001820 effector binding site; other site 548479001821 R2 peptide binding site; other site 548479001822 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 548479001823 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 548479001824 dimer interface [polypeptide binding]; other site 548479001825 putative radical transfer pathway; other site 548479001826 diiron center [ion binding]; other site 548479001827 tyrosyl radical; other site 548479001828 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479001829 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479001830 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479001831 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 548479001832 active site 548479001833 HrpA-like helicases [DNA replication, recombination, and repair]; Region: HrpA; COG1643 548479001834 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 548479001835 ATP binding site [chemical binding]; other site 548479001836 putative Mg++ binding site [ion binding]; other site 548479001837 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 548479001838 nucleotide binding region [chemical binding]; other site 548479001839 ATP-binding site [chemical binding]; other site 548479001840 Helicase associated domain (HA2); Region: HA2; pfam04408 548479001841 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 548479001842 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 548479001843 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 548479001844 Ferritin-CCC1, N-terminal ferritin-like diiron-binding domain; Region: Ferritin_CCC1_N; cd01044 548479001845 diiron binding motif [ion binding]; other site 548479001846 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_2; cd02433 548479001847 UPF0126 domain; Region: UPF0126; pfam03458 548479001848 Predicted membrane protein [Function unknown]; Region: COG2860 548479001849 UPF0126 domain; Region: UPF0126; pfam03458 548479001850 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 548479001851 phosphoglucomutase; Validated; Region: PRK07564 548479001852 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 548479001853 active site 548479001854 substrate binding site [chemical binding]; other site 548479001855 metal binding site [ion binding]; metal-binding site 548479001856 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 548479001857 Ligand binding site; other site 548479001858 Putative Catalytic site; other site 548479001859 DXD motif; other site 548479001860 seryl-tRNA synthetase; Provisional; Region: PRK05431 548479001861 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 548479001862 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 548479001863 dimer interface [polypeptide binding]; other site 548479001864 active site 548479001865 motif 1; other site 548479001866 motif 2; other site 548479001867 motif 3; other site 548479001868 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 548479001869 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 548479001870 active site 548479001871 motif I; other site 548479001872 motif II; other site 548479001873 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 548479001874 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 548479001875 putative active cleft [active] 548479001876 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 548479001877 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 548479001878 domain interfaces; other site 548479001879 active site 548479001880 Entner-Doudoroff aldolase; Region: eda; TIGR01182 548479001881 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 548479001882 active site 548479001883 intersubunit interface [polypeptide binding]; other site 548479001884 catalytic residue [active] 548479001885 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 548479001886 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 548479001887 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 548479001888 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 548479001889 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 548479001890 putative NAD(P) binding site [chemical binding]; other site 548479001891 catalytic Zn binding site [ion binding]; other site 548479001892 gluconate 5-dehydrogenase; Provisional; Region: PRK07523 548479001893 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 548479001894 NADP binding site [chemical binding]; other site 548479001895 homodimer interface [polypeptide binding]; other site 548479001896 active site 548479001897 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 548479001898 fructuronate transporter; Provisional; Region: PRK10034; cl15264 548479001899 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_2; cd12172 548479001900 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 548479001901 putative ligand binding site [chemical binding]; other site 548479001902 putative NAD binding site [chemical binding]; other site 548479001903 catalytic site [active] 548479001904 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 548479001905 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 548479001906 nucleotide binding site [chemical binding]; other site 548479001907 maltose O-acetyltransferase; Provisional; Region: PRK10092 548479001908 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 548479001909 active site 548479001910 substrate binding site [chemical binding]; other site 548479001911 trimer interface [polypeptide binding]; other site 548479001912 CoA binding site [chemical binding]; other site 548479001913 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 548479001914 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 548479001915 Walker A/P-loop; other site 548479001916 ATP binding site [chemical binding]; other site 548479001917 Q-loop/lid; other site 548479001918 ABC transporter signature motif; other site 548479001919 Walker B; other site 548479001920 D-loop; other site 548479001921 H-loop/switch region; other site 548479001922 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 548479001923 dimer interface [polypeptide binding]; other site 548479001924 conserved gate region; other site 548479001925 ABC-ATPase subunit interface; other site 548479001926 Protein of unknown function (DUF2662); Region: DUF3662; pfam12401 548479001927 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 548479001928 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 548479001929 phosphopeptide binding site; other site 548479001930 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 548479001931 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 548479001932 phosphopeptide binding site; other site 548479001933 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 548479001934 active site 548479001935 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 548479001936 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 548479001937 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 548479001938 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 548479001939 Catalytic domain of Protein Kinases; Region: PKc; cd00180 548479001940 active site 548479001941 ATP binding site [chemical binding]; other site 548479001942 substrate binding site [chemical binding]; other site 548479001943 activation loop (A-loop); other site 548479001944 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 548479001945 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 548479001946 active site 548479001947 ATP binding site [chemical binding]; other site 548479001948 substrate binding site [chemical binding]; other site 548479001949 activation loop (A-loop); other site 548479001950 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 548479001951 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 548479001952 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 548479001953 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 548479001954 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 548479001955 catalytic residues [active] 548479001956 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 548479001957 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 548479001958 aspartate kinase; Reviewed; Region: PRK06635 548479001959 AAK_AK-DapG-like: Amino Acid Kinase Superfamily (AAK), AK-DapG-like; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the diaminopimelate-sensitive aspartokinase isoenzyme AKI (DapG), a monofunctional enzymes found in Bacilli; Region: AAK_AK-DapG-like; cd04246 548479001960 putative catalytic residues [active] 548479001961 putative nucleotide binding site [chemical binding]; other site 548479001962 putative aspartate binding site [chemical binding]; other site 548479001963 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 548479001964 putative allosteric regulatory site; other site 548479001965 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 548479001966 putative allosteric regulatory residue; other site 548479001967 recombination protein RecR; Reviewed; Region: recR; PRK00076 548479001968 RecR protein; Region: RecR; pfam02132 548479001969 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 548479001970 putative active site [active] 548479001971 putative metal-binding site [ion binding]; other site 548479001972 tetramer interface [polypeptide binding]; other site 548479001973 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 548479001974 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 548479001975 Walker A motif; other site 548479001976 ATP binding site [chemical binding]; other site 548479001977 Walker B motif; other site 548479001978 arginine finger; other site 548479001979 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 548479001980 Domain of unknown function, E. rectale Gene description (DUF3881); Region: DUF3881; pfam12997 548479001981 UDP-glucose 4-epimerase; Region: PLN02240 548479001982 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 548479001983 NAD binding site [chemical binding]; other site 548479001984 homodimer interface [polypeptide binding]; other site 548479001985 active site 548479001986 substrate binding site [chemical binding]; other site 548479001987 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved...; Region: Sortase_D_5; cd05830 548479001988 active site 548479001989 catalytic site [active] 548479001990 Uncharacterized protein family (UPF0233); Region: UPF0233; pfam06781 548479001991 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 548479001992 active site 548479001993 Rhomboid family; Region: Rhomboid; cl11446 548479001994 putative transposase OrfB; Reviewed; Region: PHA02517 548479001995 HTH-like domain; Region: HTH_21; pfam13276 548479001996 Integrase core domain; Region: rve; pfam00665 548479001997 Integrase core domain; Region: rve_2; pfam13333 548479001998 HipA N-terminal domain; Region: Couple_hipA; pfam13657 548479001999 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 548479002000 HipA-like N-terminal domain; Region: HipA_N; pfam07805 548479002001 HipA-like C-terminal domain; Region: HipA_C; pfam07804 548479002002 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 548479002003 non-specific DNA binding site [nucleotide binding]; other site 548479002004 salt bridge; other site 548479002005 sequence-specific DNA binding site [nucleotide binding]; other site 548479002006 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 548479002007 AAA domain; Region: AAA_14; pfam13173 548479002008 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 548479002009 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 548479002010 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 548479002011 FtsX-like permease family; Region: FtsX; pfam02687 548479002012 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 548479002013 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 548479002014 Walker A/P-loop; other site 548479002015 ATP binding site [chemical binding]; other site 548479002016 Q-loop/lid; other site 548479002017 ABC transporter signature motif; other site 548479002018 Walker B; other site 548479002019 D-loop; other site 548479002020 H-loop/switch region; other site 548479002021 Predicted transcriptional regulators [Transcription]; Region: COG1695 548479002022 Transcriptional regulator PadR-like family; Region: PadR; cl17335 548479002023 putative transposase OrfB; Reviewed; Region: PHA02517 548479002024 HTH-like domain; Region: HTH_21; pfam13276 548479002025 Integrase core domain; Region: rve; pfam00665 548479002026 Integrase core domain; Region: rve_3; pfam13683 548479002027 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 548479002028 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 548479002029 UDP-galactopyranose mutase; Region: GLF; pfam03275 548479002030 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 548479002031 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 548479002032 active site 548479002033 Transmembrane domain of unknown function (DUF3566); Region: DUF3566; pfam12089 548479002034 DNA gyrase subunit A; Validated; Region: PRK05560 548479002035 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 548479002036 CAP-like domain; other site 548479002037 active site 548479002038 primary dimer interface [polypeptide binding]; other site 548479002039 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 548479002040 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 548479002041 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 548479002042 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 548479002043 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 548479002044 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 548479002045 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 548479002046 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 548479002047 ATP binding site [chemical binding]; other site 548479002048 Mg2+ binding site [ion binding]; other site 548479002049 G-X-G motif; other site 548479002050 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 548479002051 anchoring element; other site 548479002052 dimer interface [polypeptide binding]; other site 548479002053 ATP binding site [chemical binding]; other site 548479002054 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 548479002055 active site 548479002056 putative metal-binding site [ion binding]; other site 548479002057 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 548479002058 Protein of unknown function (DUF721); Region: DUF721; cl02324 548479002059 recombination protein F; Reviewed; Region: recF; PRK00064 548479002060 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 548479002061 Walker A/P-loop; other site 548479002062 ATP binding site [chemical binding]; other site 548479002063 Q-loop/lid; other site 548479002064 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 548479002065 ABC transporter signature motif; other site 548479002066 Walker B; other site 548479002067 D-loop; other site 548479002068 H-loop/switch region; other site 548479002069 DNA polymerase III subunit beta; Validated; Region: PRK07761 548479002070 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 548479002071 putative DNA binding surface [nucleotide binding]; other site 548479002072 dimer interface [polypeptide binding]; other site 548479002073 beta-clamp/clamp loader binding surface; other site 548479002074 beta-clamp/translesion DNA polymerase binding surface; other site 548479002075 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 548479002076 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 548479002077 Walker A motif; other site 548479002078 ATP binding site [chemical binding]; other site 548479002079 Walker B motif; other site 548479002080 arginine finger; other site 548479002081 C-terminal domain of bacterial DnaA proteins. The DNA-binding C-terminal domain of DnaA contains a helix-turn-helix motif that specifically interacts with the DnaA box, a 9-mer motif that occurs repetitively in the replication origin oriC. Multiple...; Region: Bac_DnaA_C; cd06571 548479002082 DnaA box-binding interface [nucleotide binding]; other site 548479002083 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 548479002084 Ribonuclease P; Region: Ribonuclease_P; pfam00825 548479002085 Haemolytic domain; Region: Haemolytic; pfam01809 548479002086 putative inner membrane protein translocase component YidC; Provisional; Region: PRK01315 548479002087 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 548479002088 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 548479002089 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 548479002090 G-X-X-G motif; other site 548479002091 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 548479002092 RxxxH motif; other site 548479002093 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 548479002094 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 548479002095 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 548479002096 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 548479002097 P-loop; other site 548479002098 Magnesium ion binding site [ion binding]; other site 548479002099 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 548479002100 Magnesium ion binding site [ion binding]; other site 548479002101 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 548479002102 ParB-like nuclease domain; Region: ParB; smart00470 548479002103 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 548479002104 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 548479002105 pyridoxal 5'-phosphate binding site [chemical binding]; other site 548479002106 homodimer interface [polypeptide binding]; other site 548479002107 catalytic residue [active] 548479002108 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 548479002109 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 548479002110 catalytic residues [active] 548479002111 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 548479002112 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 548479002113 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 548479002114 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 548479002115 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 548479002116 Diadenosine hexaphosphate (Ap6A) hydrolase is a member of the Nudix hydrolase superfamily. Ap6A hydrolase specifically hydrolyzes diadenosine polyphosphates, but not ATP or diadenosine triphosphate, and it generates ATP as the product. Ap6A, the most...; Region: Ap6A_hydrolase; cd03673 548479002117 active site 548479002118 Ap6A binding site [chemical binding]; other site 548479002119 nudix motif; other site 548479002120 metal binding site [ion binding]; metal-binding site 548479002121 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 548479002122 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 548479002123 active site 548479002124 NTP binding site [chemical binding]; other site 548479002125 metal binding triad [ion binding]; metal-binding site 548479002126 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 548479002127 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 548479002128 Zn2+ binding site [ion binding]; other site 548479002129 Mg2+ binding site [ion binding]; other site 548479002130 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 548479002131 Transglycosylase; Region: Transgly; pfam00912 548479002132 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 548479002133 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 548479002134 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 548479002135 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 548479002136 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 548479002137 dimer interface [polypeptide binding]; other site 548479002138 ssDNA binding site [nucleotide binding]; other site 548479002139 tetramer (dimer of dimers) interface [polypeptide binding]; other site 548479002140 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 548479002141 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 548479002142 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 548479002143 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 548479002144 replicative DNA helicase; Region: DnaB; TIGR00665 548479002145 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 548479002146 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 548479002147 Walker A motif; other site 548479002148 ATP binding site [chemical binding]; other site 548479002149 Walker B motif; other site 548479002150 DNA binding loops [nucleotide binding] 548479002151 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 548479002152 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 548479002153 transmembrane helices; other site 548479002154 Protein of unknown function (DUF418); Region: DUF418; pfam04235 548479002155 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl17742 548479002156 diaminopimelate dehydrogenase; Region: DAP-DH; TIGR01921 548479002157 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 548479002158 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 548479002159 pyruvate ferredoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK08367 548479002160 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 548479002161 dimer interface [polypeptide binding]; other site 548479002162 PYR/PP interface [polypeptide binding]; other site 548479002163 TPP binding site [chemical binding]; other site 548479002164 substrate binding site [chemical binding]; other site 548479002165 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 548479002166 pyruvate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11865 548479002167 Thiamine pyrophosphate (TPP family), PFOR porB-like subfamily, TPP-binding module; composed of proteins similar to the beta subunit (porB) of the Helicobacter pylori four-subunit pyruvate ferredoxin oxidoreductase (PFOR), which are also found in archaea...; Region: TPP_PFOR_porB_like; cd03376 548479002168 TPP-binding site [chemical binding]; other site 548479002169 putative dimer interface [polypeptide binding]; other site 548479002170 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 548479002171 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 548479002172 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 548479002173 4Fe-4S binding domain; Region: Fer4; pfam00037 548479002174 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479002175 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479002176 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479002177 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 548479002178 Protein of unknown function DUF45; Region: DUF45; pfam01863 548479002179 Chlorite dismutase; Region: Chlor_dismutase; cl01280 548479002180 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 548479002181 C-terminal domain interface [polypeptide binding]; other site 548479002182 active site 548479002183 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 548479002184 N-terminal domain interface [polypeptide binding]; other site 548479002185 active site 548479002186 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 548479002187 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 548479002188 NAD(P) binding pocket [chemical binding]; other site 548479002189 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 548479002190 uroporphyrinogen decarboxylase; Validated; Region: hemE; PRK00115 548479002191 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 548479002192 protoporphyrinogen oxidase; Reviewed; Region: PRK11883 548479002193 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 548479002194 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 548479002195 domain interfaces; other site 548479002196 active site 548479002197 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 548479002198 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 548479002199 active site 548479002200 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 548479002201 dimer interface [polypeptide binding]; other site 548479002202 active site 548479002203 Schiff base residues; other site 548479002204 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 548479002205 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 548479002206 inhibitor-cofactor binding pocket; inhibition site 548479002207 pyridoxal 5'-phosphate binding site [chemical binding]; other site 548479002208 catalytic residue [active] 548479002209 adenylosuccinate lyase; Provisional; Region: PRK09285 548479002210 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 548479002211 tetramer interface [polypeptide binding]; other site 548479002212 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; cl00207 548479002213 metal-binding site [ion binding] 548479002214 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 548479002215 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 548479002216 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 548479002217 metal-binding site [ion binding] 548479002218 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 548479002219 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 548479002220 putative substrate translocation pore; other site 548479002221 Major Facilitator Superfamily; Region: MFS_1; pfam07690 548479002222 helicase/secretion neighborhood TadE-like protein; Region: tadE_like_DECH; TIGR03816 548479002223 Protein of unknown function (DUF4244); Region: DUF4244; pfam14029 548479002224 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 548479002225 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 548479002226 Type II/IV secretion system protein; Region: T2SE; pfam00437 548479002227 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 548479002228 ATP binding site [chemical binding]; other site 548479002229 Walker A motif; other site 548479002230 hexamer interface [polypeptide binding]; other site 548479002231 Walker B motif; other site 548479002232 Succinate:quinone oxidoreductase (SQR) and Quinol:fumarate reductase (QFR) family, transmembrane subunits; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol, while QFR catalyzes the reverse reaction. SQR; Region: SQR_QFR_TM; cl00881 548479002233 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 548479002234 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; cl00047 548479002235 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 548479002236 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 548479002237 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 548479002238 Transglycosylase; Region: Transgly; pfam00912 548479002239 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 548479002240 Predicted phosphohydrolases [General function prediction only]; Region: COG1408 548479002241 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 548479002242 active site 548479002243 metal binding site [ion binding]; metal-binding site 548479002244 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 548479002245 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 548479002246 non-specific DNA binding site [nucleotide binding]; other site 548479002247 salt bridge; other site 548479002248 sequence-specific DNA binding site [nucleotide binding]; other site 548479002249 HipA N-terminal domain; Region: Couple_hipA; pfam13657 548479002250 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 548479002251 HipA-like N-terminal domain; Region: HipA_N; pfam07805 548479002252 HipA-like C-terminal domain; Region: HipA_C; pfam07804 548479002253 Protein of unknown function (DUF1643); Region: DUF1643; cl01787 548479002254 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479002255 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479002256 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479002257 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 548479002258 AAA domain; Region: AAA_14; pfam13173 548479002259 Uncharacterized protein family UPF0102; Region: UPF0102; cl00516 548479002260 Integrase core domain; Region: rve; pfam00665 548479002261 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 548479002262 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 548479002263 Walker A/P-loop; other site 548479002264 ATP binding site [chemical binding]; other site 548479002265 Q-loop/lid; other site 548479002266 ABC transporter signature motif; other site 548479002267 Walker B; other site 548479002268 D-loop; other site 548479002269 H-loop/switch region; other site 548479002270 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 548479002271 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 548479002272 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 548479002273 Walker A/P-loop; other site 548479002274 ATP binding site [chemical binding]; other site 548479002275 Q-loop/lid; other site 548479002276 ABC transporter signature motif; other site 548479002277 Walker B; other site 548479002278 D-loop; other site 548479002279 H-loop/switch region; other site 548479002280 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 548479002281 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 548479002282 Walker A/P-loop; other site 548479002283 ATP binding site [chemical binding]; other site 548479002284 Q-loop/lid; other site 548479002285 ABC transporter signature motif; other site 548479002286 Walker B; other site 548479002287 D-loop; other site 548479002288 H-loop/switch region; other site 548479002289 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 548479002290 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 548479002291 Walker A/P-loop; other site 548479002292 ATP binding site [chemical binding]; other site 548479002293 Q-loop/lid; other site 548479002294 ABC transporter signature motif; other site 548479002295 Walker B; other site 548479002296 D-loop; other site 548479002297 H-loop/switch region; other site 548479002298 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 548479002299 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; cl09823 548479002300 Integrase core domain; Region: rve; pfam00665 548479002301 Integrase core domain; Region: rve_3; pfam13683 548479002302 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 548479002303 Low molecular weight phosphatase family; Region: LMWPc; cl00105 548479002304 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 548479002305 Double zinc ribbon; Region: DZR; pfam12773 548479002306 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 548479002307 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 548479002308 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 548479002309 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 548479002310 putative dimer interface [polypeptide binding]; other site 548479002311 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 548479002312 HupF/HypC family; Region: HupF_HypC; pfam01455 548479002313 Coenzyme F420-reducing hydrogenase, alpha subunit [Energy production and conversion]; Region: FrhA; COG3259 548479002314 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 548479002315 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 548479002316 Hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). These enzymes belong to the peptidase family M52. Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing...; Region: H2MP; cl00477 548479002317 nickel binding site [ion binding]; other site 548479002318 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 548479002319 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 548479002320 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 548479002321 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 548479002322 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 548479002323 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 548479002324 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 548479002325 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 548479002326 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 548479002327 Acylphosphatase; Region: Acylphosphatase; pfam00708 548479002328 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 548479002329 HypF finger; Region: zf-HYPF; pfam07503 548479002330 HypF finger; Region: zf-HYPF; pfam07503 548479002331 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 548479002332 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 548479002333 dimerization interface [polypeptide binding]; other site 548479002334 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 548479002335 ATP binding site [chemical binding]; other site 548479002336 HupF/HypC family; Region: HupF_HypC; pfam01455 548479002337 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 548479002338 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 548479002339 GTP-binding protein YchF; Reviewed; Region: PRK09601 548479002340 YchF GTPase; Region: YchF; cd01900 548479002341 G1 box; other site 548479002342 GTP/Mg2+ binding site [chemical binding]; other site 548479002343 Switch I region; other site 548479002344 G2 box; other site 548479002345 Switch II region; other site 548479002346 G3 box; other site 548479002347 G4 box; other site 548479002348 G5 box; other site 548479002349 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 548479002350 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 548479002351 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 548479002352 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 548479002353 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 548479002354 generic binding surface II; other site 548479002355 generic binding surface I; other site 548479002356 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 548479002357 Acyltransferase family; Region: Acyl_transf_3; pfam01757 548479002358 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 548479002359 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 548479002360 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 548479002361 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 548479002362 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 548479002363 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 548479002364 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 548479002365 catalytic residue [active] 548479002366 putative FPP diphosphate binding site; other site 548479002367 putative FPP binding hydrophobic cleft; other site 548479002368 dimer interface [polypeptide binding]; other site 548479002369 putative IPP diphosphate binding site; other site 548479002370 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 548479002371 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 548479002372 putative active site [active] 548479002373 PhoH-like protein; Region: PhoH; pfam02562 548479002374 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 548479002375 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 548479002376 GDP-binding site [chemical binding]; other site 548479002377 ACT binding site; other site 548479002378 IMP binding site; other site 548479002379 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_GTP; cd00819 548479002380 active site 548479002381 substrate-binding site [chemical binding]; other site 548479002382 metal-binding site [ion binding] 548479002383 GTP binding site [chemical binding]; other site 548479002384 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 548479002385 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 548479002386 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 548479002387 active site 548479002388 interdomain interaction site; other site 548479002389 putative metal-binding site [ion binding]; other site 548479002390 nucleotide binding site [chemical binding]; other site 548479002391 Bacterial DNA topoisomeraes I ATP-binding domain; Region: TOP1Bc; smart00436 548479002392 domain I; other site 548479002393 phosphate binding site [ion binding]; other site 548479002394 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 548479002395 domain II; other site 548479002396 domain III; other site 548479002397 nucleotide binding site [chemical binding]; other site 548479002398 DNA binding groove [nucleotide binding] 548479002399 catalytic site [active] 548479002400 domain IV; other site 548479002401 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 548479002402 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 548479002403 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 548479002404 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 548479002405 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 548479002406 catalytic triad [active] 548479002407 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 548479002408 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 548479002409 dimer interface [polypeptide binding]; other site 548479002410 conserved gate region; other site 548479002411 putative PBP binding loops; other site 548479002412 ABC-ATPase subunit interface; other site 548479002413 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 548479002414 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 548479002415 Walker A/P-loop; other site 548479002416 ATP binding site [chemical binding]; other site 548479002417 Q-loop/lid; other site 548479002418 ABC transporter signature motif; other site 548479002419 Walker B; other site 548479002420 D-loop; other site 548479002421 H-loop/switch region; other site 548479002422 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 548479002423 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 548479002424 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 548479002425 Walker A/P-loop; other site 548479002426 ATP binding site [chemical binding]; other site 548479002427 Q-loop/lid; other site 548479002428 ABC transporter signature motif; other site 548479002429 Walker B; other site 548479002430 D-loop; other site 548479002431 H-loop/switch region; other site 548479002432 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 548479002433 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 548479002434 dimer interface [polypeptide binding]; other site 548479002435 conserved gate region; other site 548479002436 putative PBP binding loops; other site 548479002437 ABC-ATPase subunit interface; other site 548479002438 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 548479002439 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 548479002440 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 548479002441 dimerization interface [polypeptide binding]; other site 548479002442 putative DNA binding site [nucleotide binding]; other site 548479002443 putative Zn2+ binding site [ion binding]; other site 548479002444 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 548479002445 Major Facilitator Superfamily; Region: MFS_1; pfam07690 548479002446 putative substrate translocation pore; other site 548479002447 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 548479002448 Major Facilitator Superfamily; Region: MFS_1; pfam07690 548479002449 putative substrate translocation pore; other site 548479002450 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 548479002451 substrate binding site; other site 548479002452 dimer interface; other site 548479002453 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 548479002454 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 548479002455 Nitrogen regulatory protein P-II; Region: P-II; smart00938 548479002456 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 548479002457 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 548479002458 Nitrogen regulatory protein P-II; Region: P-II; smart00938 548479002459 Nitrogen regulatory protein P-II; Region: P-II; cl00412 548479002460 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 548479002461 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 548479002462 catalytic core [active] 548479002463 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 548479002464 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 548479002465 AzlC protein; Region: AzlC; pfam03591 548479002466 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 548479002467 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 548479002468 active site 548479002469 HIGH motif; other site 548479002470 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 548479002471 KMSKS motif; other site 548479002472 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 548479002473 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 548479002474 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 548479002475 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 548479002476 Protein of unknown function (DUF1003); Region: DUF1003; pfam06210 548479002477 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 548479002478 MgtE intracellular N domain; Region: MgtE_N; smart00924 548479002479 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 548479002480 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 548479002481 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 548479002482 Thioredoxin; Region: Thioredoxin_4; pfam13462 548479002483 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 548479002484 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 548479002485 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 548479002486 active site 548479002487 metal binding site [ion binding]; metal-binding site 548479002488 Atrophin-1 family; Region: Atrophin-1; pfam03154 548479002489 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 548479002490 Radical SAM superfamily; Region: Radical_SAM; pfam04055 548479002491 FeS/SAM binding site; other site 548479002492 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 548479002493 Class III ribonucleotide reductase; Region: RNR_III; cd01675 548479002494 effector binding site; other site 548479002495 active site 548479002496 Zn binding site [ion binding]; other site 548479002497 glycine loop; other site 548479002498 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 548479002499 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 548479002500 active site 548479002501 phosphorylation site [posttranslational modification] 548479002502 intermolecular recognition site; other site 548479002503 dimerization interface [polypeptide binding]; other site 548479002504 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 548479002505 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 548479002506 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 548479002507 pyridoxal 5'-phosphate binding site [chemical binding]; other site 548479002508 homodimer interface [polypeptide binding]; other site 548479002509 catalytic residue [active] 548479002510 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 548479002511 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 548479002512 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479002513 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479002514 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479002515 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 548479002516 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 548479002517 active site 548479002518 Repair protein; Region: Repair_PSII; pfam04536 548479002519 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 548479002520 homotrimer interaction site [polypeptide binding]; other site 548479002521 zinc binding site [ion binding]; other site 548479002522 CDP-binding sites; other site 548479002523 Lsr2; Region: Lsr2; pfam11774 548479002524 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 548479002525 TAP-like protein; Region: Abhydrolase_4; pfam08386 548479002526 DNA polymerase III subunit delta'; Validated; Region: PRK07940 548479002527 DNA polymerase III subunit delta'; Validated; Region: PRK08485 548479002528 thymidylate kinase; Validated; Region: tmk; PRK00698 548479002529 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 548479002530 TMP-binding site; other site 548479002531 ATP-binding site [chemical binding]; other site 548479002532 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 548479002533 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 548479002534 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 548479002535 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 548479002536 FliW protein; Region: FliW; pfam02623 548479002537 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK07701 548479002538 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 548479002539 flagellar hook-associated protein FlgK; Region: flgK_ends; TIGR02492 548479002540 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 548479002541 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 548479002542 FlgN protein; Region: FlgN; pfam05130 548479002543 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 548479002544 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 548479002545 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 548479002546 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 548479002547 DNA binding residues [nucleotide binding] 548479002548 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 548479002549 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 548479002550 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 548479002551 Flagellar protein FliS; Region: FliS; cl00654 548479002552 flagellar basal-body rod protein FlgB; Region: FlgB; TIGR01396 548479002553 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 548479002554 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 548479002555 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 548479002556 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 548479002557 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 548479002558 FliG C-terminal domain; Region: FliG_C; pfam01706 548479002559 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 548479002560 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 548479002561 Walker A motif/ATP binding site; other site 548479002562 Walker B motif; other site 548479002563 Flagellar FliJ protein; Region: FliJ; pfam02050 548479002564 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 548479002565 NlpC/P60 family; Region: NLPC_P60; pfam00877 548479002566 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 548479002567 Flagellar hook capping protein [Cell motility and secretion]; Region: FlgD; COG1843 548479002568 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 548479002569 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 548479002570 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 548479002571 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 548479002572 Flagellar protein (FlbD); Region: FlbD; pfam06289 548479002573 flagellar motor protein MotA; Validated; Region: PRK08124 548479002574 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 548479002575 flagellar motor protein MotD; Reviewed; Region: PRK09038 548479002576 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 548479002577 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 548479002578 ligand binding site [chemical binding]; other site 548479002579 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 548479002580 Flagellar motor switch protein FliM; Region: FliM; pfam02154 548479002581 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 548479002582 flagellar motor switch protein FliN; Region: fliN; TIGR02480 548479002583 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 548479002584 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 548479002585 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 548479002586 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 548479002587 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 548479002588 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 548479002589 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 548479002590 FHIPEP family; Region: FHIPEP; pfam00771 548479002591 Global regulator protein family; Region: CsrA; cl00670 548479002592 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 548479002593 putative binding surface; other site 548479002594 active site 548479002595 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 548479002596 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 548479002597 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 548479002598 ATP binding site [chemical binding]; other site 548479002599 G-X-G motif; other site 548479002600 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 548479002601 CheW-like domain; Region: CheW; pfam01584 548479002602 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 548479002603 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 548479002604 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 548479002605 active site 548479002606 phosphorylation site [posttranslational modification] 548479002607 intermolecular recognition site; other site 548479002608 dimerization interface [polypeptide binding]; other site 548479002609 CheB methylesterase; Region: CheB_methylest; pfam01339 548479002610 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 548479002611 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 548479002612 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 548479002613 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 548479002614 Response regulator receiver domain; Region: Response_reg; pfam00072 548479002615 active site 548479002616 phosphorylation site [posttranslational modification] 548479002617 intermolecular recognition site; other site 548479002618 dimerization interface [polypeptide binding]; other site 548479002619 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 548479002620 Response regulator receiver domain; Region: Response_reg; pfam00072 548479002621 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 548479002622 active site 548479002623 phosphorylation site [posttranslational modification] 548479002624 intermolecular recognition site; other site 548479002625 dimerization interface [polypeptide binding]; other site 548479002626 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 548479002627 active site 548479002628 ATP binding site [chemical binding]; other site 548479002629 substrate binding site [chemical binding]; other site 548479002630 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 548479002631 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 548479002632 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 548479002633 putative active site [active] 548479002634 catalytic triad [active] 548479002635 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 548479002636 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 548479002637 dimerization interface [polypeptide binding]; other site 548479002638 ATP binding site [chemical binding]; other site 548479002639 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 548479002640 dimerization interface [polypeptide binding]; other site 548479002641 ATP binding site [chemical binding]; other site 548479002642 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 548479002643 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 548479002644 dimer interface [polypeptide binding]; other site 548479002645 decamer (pentamer of dimers) interface [polypeptide binding]; other site 548479002646 catalytic triad [active] 548479002647 peroxidatic and resolving cysteines [active] 548479002648 glutamate dehydrogenase; Provisional; Region: PRK09414 548479002649 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 548479002650 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 548479002651 NAD(P) binding site [chemical binding]; other site 548479002652 NAD synthetase; Reviewed; Region: nadE; PRK02628 548479002653 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 548479002654 dimer interface [polypeptide binding]; other site 548479002655 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 548479002656 Ligand Binding Site [chemical binding]; other site 548479002657 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 548479002658 Galactose-1-phosphate uridylyltransferase [Energy production and conversion]; Region: GalT; COG1085 548479002659 nucleotide binding site/active site [active] 548479002660 HIT family signature motif; other site 548479002661 catalytic residue [active] 548479002662 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 548479002663 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 548479002664 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 548479002665 CDGSH-type zinc finger. Function unknown; Region: ZnF_CDGSH; smart00704 548479002666 flagellin; Provisional; Region: PRK12802 548479002667 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 548479002668 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 548479002669 flagellin; Reviewed; Region: PRK08869 548479002670 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 548479002671 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 548479002672 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 548479002673 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; cd00995 548479002674 Protein of unknown function (DUF3073); Region: DUF3073; pfam11273 548479002675 amidophosphoribosyltransferase; Provisional; Region: PRK07847 548479002676 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 548479002677 active site 548479002678 tetramer interface [polypeptide binding]; other site 548479002679 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 548479002680 active site 548479002681 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 548479002682 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 548479002683 dimerization interface [polypeptide binding]; other site 548479002684 putative ATP binding site [chemical binding]; other site 548479002685 Protein of unknown function (DUF3618); Region: DUF3618; pfam12277 548479002686 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 548479002687 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 548479002688 FtsX-like permease family; Region: FtsX; pfam02687 548479002689 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 548479002690 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 548479002691 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 548479002692 Walker A/P-loop; other site 548479002693 ATP binding site [chemical binding]; other site 548479002694 Q-loop/lid; other site 548479002695 ABC transporter signature motif; other site 548479002696 Walker B; other site 548479002697 D-loop; other site 548479002698 H-loop/switch region; other site 548479002699 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 548479002700 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 548479002701 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 548479002702 catalytic residue [active] 548479002703 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 548479002704 Septum formation initiator; Region: DivIC; pfam04977 548479002705 Protein of unknown function (DUF501); Region: DUF501; cl00652 548479002706 exopolyphosphatase; Region: exo_poly_only; TIGR03706 548479002707 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 548479002708 Topoisomerase II-associated protein PAT1; Region: PAT1; pfam09770 548479002709 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 548479002710 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 548479002711 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 548479002712 active site 548479002713 phosphorylation site [posttranslational modification] 548479002714 intermolecular recognition site; other site 548479002715 dimerization interface [polypeptide binding]; other site 548479002716 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 548479002717 DNA binding residues [nucleotide binding] 548479002718 dimerization interface [polypeptide binding]; other site 548479002719 Histidine kinase; Region: HisKA_3; pfam07730 548479002720 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 548479002721 Bax inhibitor 1 like; Region: BaxI_1; cl17691 548479002722 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 548479002723 Coenzyme A binding pocket [chemical binding]; other site 548479002724 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 548479002725 Domain of unknown function DUF20; Region: UPF0118; pfam01594 548479002726 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 548479002727 FAD binding domain; Region: FAD_binding_4; pfam01565 548479002728 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 548479002729 sn-glycerol-3-phosphate dehydrogenase subunit C; Provisional; Region: glpC; PRK11168 548479002730 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 548479002731 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 548479002732 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 548479002733 active site 548479002734 substrate binding sites [chemical binding]; other site 548479002735 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479002736 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479002737 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479002738 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 548479002739 trimer interface [polypeptide binding]; other site 548479002740 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 548479002741 Domain of unknown function (DUF4234); Region: DUF4234; pfam14018 548479002742 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 548479002743 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 548479002744 ligand binding site [chemical binding]; other site 548479002745 homodimer interface [polypeptide binding]; other site 548479002746 NAD(P) binding site [chemical binding]; other site 548479002747 trimer interface B [polypeptide binding]; other site 548479002748 trimer interface A [polypeptide binding]; other site 548479002749 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 548479002750 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 548479002751 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 548479002752 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479002753 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479002754 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479002755 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 548479002756 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 548479002757 NlpC/P60 family; Region: NLPC_P60; cl17555 548479002758 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 548479002759 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 548479002760 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 548479002761 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 548479002762 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; cd00995 548479002763 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 548479002764 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 548479002765 dimer interface [polypeptide binding]; other site 548479002766 conserved gate region; other site 548479002767 ABC-ATPase subunit interface; other site 548479002768 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 548479002769 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 548479002770 dimer interface [polypeptide binding]; other site 548479002771 conserved gate region; other site 548479002772 putative PBP binding loops; other site 548479002773 ABC-ATPase subunit interface; other site 548479002774 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 548479002775 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 548479002776 Walker A/P-loop; other site 548479002777 ATP binding site [chemical binding]; other site 548479002778 Q-loop/lid; other site 548479002779 ABC transporter signature motif; other site 548479002780 Walker B; other site 548479002781 D-loop; other site 548479002782 H-loop/switch region; other site 548479002783 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 548479002784 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 548479002785 Walker A/P-loop; other site 548479002786 ATP binding site [chemical binding]; other site 548479002787 Q-loop/lid; other site 548479002788 ABC transporter signature motif; other site 548479002789 Walker B; other site 548479002790 D-loop; other site 548479002791 H-loop/switch region; other site 548479002792 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 548479002793 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 548479002794 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 548479002795 G1 box; other site 548479002796 putative GEF interaction site [polypeptide binding]; other site 548479002797 GTP/Mg2+ binding site [chemical binding]; other site 548479002798 Switch I region; other site 548479002799 G2 box; other site 548479002800 G3 box; other site 548479002801 Switch II region; other site 548479002802 G4 box; other site 548479002803 G5 box; other site 548479002804 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 548479002805 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 548479002806 Uncharacterized vancomycin resistance protein [Defense mechanisms]; Region: COG2720 548479002807 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 548479002808 VanW like protein; Region: VanW; pfam04294 548479002809 Ferredoxin [Energy production and conversion]; Region: COG1146 548479002810 4Fe-4S binding domain; Region: Fer4; cl02805 548479002811 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 548479002812 dimer interface [polypeptide binding]; other site 548479002813 Citrate synthase; Region: Citrate_synt; pfam00285 548479002814 active site 548479002815 citrylCoA binding site [chemical binding]; other site 548479002816 NADH binding [chemical binding]; other site 548479002817 cationic pore residues; other site 548479002818 oxalacetate/citrate binding site [chemical binding]; other site 548479002819 coenzyme A binding site [chemical binding]; other site 548479002820 catalytic triad [active] 548479002821 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_actino; TIGR03535 548479002822 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 548479002823 putative trimer interface [polypeptide binding]; other site 548479002824 putative CoA binding site [chemical binding]; other site 548479002825 DNA repair protein RadA; Provisional; Region: PRK11823 548479002826 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 548479002827 Walker A motif; other site 548479002828 ATP binding site [chemical binding]; other site 548479002829 Walker B motif; other site 548479002830 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 548479002831 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 548479002832 UbiA prenyltransferase family; Region: UbiA; pfam01040 548479002833 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 548479002834 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 548479002835 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 548479002836 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 548479002837 active site residue [active] 548479002838 Aldose 1-epimerase, similar to Escherichia coli YihR; Region: Aldose_epim_Ec_YihR; cd09022 548479002839 active site 548479002840 catalytic residues [active] 548479002841 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 548479002842 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 548479002843 intersubunit interface [polypeptide binding]; other site 548479002844 active site 548479002845 zinc binding site [ion binding]; other site 548479002846 Na+ binding site [ion binding]; other site 548479002847 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 548479002848 substrate binding site [chemical binding]; other site 548479002849 ATP binding site [chemical binding]; other site 548479002850 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 548479002851 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 548479002852 nucleotide binding site [chemical binding]; other site 548479002853 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 548479002854 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 548479002855 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 548479002856 dimer interface [polypeptide binding]; other site 548479002857 active site 548479002858 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 548479002859 dimer interface [polypeptide binding]; other site 548479002860 active site 548479002861 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 548479002862 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 548479002863 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 548479002864 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 548479002865 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 548479002866 RPB12 interaction site [polypeptide binding]; other site 548479002867 RPB1 interaction site [polypeptide binding]; other site 548479002868 RPB10 interaction site [polypeptide binding]; other site 548479002869 RPB11 interaction site [polypeptide binding]; other site 548479002870 RPB3 interaction site [polypeptide binding]; other site 548479002871 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 548479002872 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 548479002873 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 548479002874 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 548479002875 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 548479002876 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 548479002877 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 548479002878 G-loop; other site 548479002879 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 548479002880 DNA binding site [nucleotide binding] 548479002881 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 548479002882 Domain of unknown function DUF20; Region: UPF0118; pfam01594 548479002883 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 548479002884 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 548479002885 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 548479002886 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK07824 548479002887 acyl-activating enzyme (AAE) consensus motif; other site 548479002888 AMP binding site [chemical binding]; other site 548479002889 active site 548479002890 CoA binding site [chemical binding]; other site 548479002891 Protein of unknown function (DUF3048); Region: DUF3048; pfam11258 548479002892 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 548479002893 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 548479002894 substrate binding site [chemical binding]; other site 548479002895 oxyanion hole (OAH) forming residues; other site 548479002896 trimer interface [polypeptide binding]; other site 548479002897 Origin recognition complex, subunit 2 [DNA replication, recombination, and repair]; Region: ORC2; COG5575 548479002898 O-succinylbenzoate synthase; Provisional; Region: PRK02901 548479002899 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 548479002900 metal binding site [ion binding]; metal-binding site 548479002901 substrate binding pocket [chemical binding]; other site 548479002902 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 548479002903 active site 548479002904 phosphopeptide binding site; other site 548479002905 FHA domain; Region: FHA; pfam00498 548479002906 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 548479002907 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 548479002908 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 548479002909 dimer interface [polypeptide binding]; other site 548479002910 tetramer interface [polypeptide binding]; other site 548479002911 PYR/PP interface [polypeptide binding]; other site 548479002912 TPP binding site [chemical binding]; other site 548479002913 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 548479002914 TPP-binding site [chemical binding]; other site 548479002915 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 548479002916 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 548479002917 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 548479002918 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 548479002919 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 548479002920 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 548479002921 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 548479002922 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 548479002923 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 548479002924 S-adenosylmethionine binding site [chemical binding]; other site 548479002925 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 548479002926 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 548479002927 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 548479002928 AAA domain; Region: AAA_14; pfam13173 548479002929 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 548479002930 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 548479002931 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 548479002932 NADH dehydrogenase subunit B; Validated; Region: PRK06411 548479002933 NADH dehydrogenase subunit C; Provisional; Region: PRK07785 548479002934 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 548479002935 NADH dehydrogenase I, D subunit; Region: NuoD; TIGR01962 548479002936 NADH dehydrogenase subunit D; Validated; Region: PRK06075 548479002937 NADH dehydrogenase subunit E; Validated; Region: PRK07539 548479002938 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 548479002939 putative dimer interface [polypeptide binding]; other site 548479002940 [2Fe-2S] cluster binding site [ion binding]; other site 548479002941 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 548479002942 SLBB domain; Region: SLBB; pfam10531 548479002943 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 548479002944 NADH dehydrogenase subunit G; Validated; Region: PRK07860 548479002945 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 548479002946 catalytic loop [active] 548479002947 iron binding site [ion binding]; other site 548479002948 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 548479002949 MopB_NADH-Q-OR-NuoG2: The NuoG/Nad11/75-kDa subunit (second domain) of the NADH-quinone oxidoreductase (NADH-Q-OR)/respiratory complex I/NADH dehydrogenase-1 (NDH-1). The NADH-Q-OR is the first energy-transducting complex in the respiratory chains of...; Region: MopB_NADH-Q-OR-NuoG2; cd02768 548479002950 MopB_CT_NDH-1_NuoG2-N7: C-terminal region of the NuoG-like subunit (of the variant with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex...; Region: MopB_CT_NDH-1_NuoG2-N7; cd02788 548479002951 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 548479002952 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 548479002953 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 548479002954 4Fe-4S binding domain; Region: Fer4; pfam00037 548479002955 4Fe-4S binding domain; Region: Fer4; pfam00037 548479002956 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 548479002957 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 548479002958 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 548479002959 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 548479002960 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 548479002961 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 548479002962 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 548479002963 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 548479002964 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 548479002965 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 548479002966 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 548479002967 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 548479002968 substrate binding pocket [chemical binding]; other site 548479002969 chain length determination region; other site 548479002970 substrate-Mg2+ binding site; other site 548479002971 catalytic residues [active] 548479002972 aspartate-rich region 1; other site 548479002973 active site lid residues [active] 548479002974 aspartate-rich region 2; other site 548479002975 short chain dehydrogenase; Provisional; Region: PRK07825 548479002976 human 17-beta-hydroxysteroid dehydrogenase XI-like, classical (c) SDRs; Region: 17beta-HSDXI-like_SDR_c; cd05339 548479002977 putative NAD(P) binding site [chemical binding]; other site 548479002978 homodimer interface [polypeptide binding]; other site 548479002979 active site 548479002980 substrate binding site [chemical binding]; other site 548479002981 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 548479002982 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 548479002983 Catalytic site [active] 548479002984 heat shock protein HtpX; Provisional; Region: PRK03072 548479002985 adenosine deaminase; Provisional; Region: PRK09358 548479002986 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 548479002987 active site 548479002988 large tegument protein UL36; Provisional; Region: PHA03247 548479002989 FAD binding domain; Region: FAD_binding_4; pfam01565 548479002990 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 548479002991 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 548479002992 putative substrate translocation pore; other site 548479002993 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 548479002994 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 548479002995 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 548479002996 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 548479002997 23S rRNA interface [nucleotide binding]; other site 548479002998 L7/L12 interface [polypeptide binding]; other site 548479002999 putative thiostrepton binding site; other site 548479003000 L25 interface [polypeptide binding]; other site 548479003001 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 548479003002 mRNA/rRNA interface [nucleotide binding]; other site 548479003003 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 548479003004 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 548479003005 cofactor binding site; other site 548479003006 DNA binding site [nucleotide binding] 548479003007 substrate interaction site [chemical binding]; other site 548479003008 HaeIII restriction endonuclease; Region: RE_HaeIII; pfam09556 548479003009 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 548479003010 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 548479003011 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 548479003012 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 548479003013 4Fe-4S binding domain; Region: Fer4; pfam00037 548479003014 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 548479003015 This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_DmsA-EC; cd02770 548479003016 putative [Fe4-S4] binding site [ion binding]; other site 548479003017 putative molybdopterin cofactor binding site [chemical binding]; other site 548479003018 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_CT_DmsA-EC; cd02794 548479003019 putative molybdopterin cofactor binding site; other site 548479003020 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 548479003021 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 548479003022 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 548479003023 23S rRNA interface [nucleotide binding]; other site 548479003024 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 548479003025 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 548479003026 core dimer interface [polypeptide binding]; other site 548479003027 peripheral dimer interface [polypeptide binding]; other site 548479003028 L10 interface [polypeptide binding]; other site 548479003029 L11 interface [polypeptide binding]; other site 548479003030 putative EF-Tu interaction site [polypeptide binding]; other site 548479003031 putative EF-G interaction site [polypeptide binding]; other site 548479003032 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 548479003033 dimerization interface [polypeptide binding]; other site 548479003034 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 548479003035 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 548479003036 dimer interface [polypeptide binding]; other site 548479003037 putative CheW interface [polypeptide binding]; other site 548479003038 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 548479003039 DNA methylase; Region: N6_N4_Mtase; pfam01555 548479003040 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 548479003041 DNA methylase; Region: N6_N4_Mtase; pfam01555 548479003042 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 548479003043 HAMP domain; Region: HAMP; pfam00672 548479003044 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 548479003045 dimer interface [polypeptide binding]; other site 548479003046 phosphorylation site [posttranslational modification] 548479003047 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 548479003048 ATP binding site [chemical binding]; other site 548479003049 Mg2+ binding site [ion binding]; other site 548479003050 G-X-G motif; other site 548479003051 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 548479003052 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 548479003053 active site 548479003054 phosphorylation site [posttranslational modification] 548479003055 intermolecular recognition site; other site 548479003056 dimerization interface [polypeptide binding]; other site 548479003057 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 548479003058 DNA binding site [nucleotide binding] 548479003059 Maf-like protein; Region: Maf; pfam02545 548479003060 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 548479003061 active site 548479003062 dimer interface [polypeptide binding]; other site 548479003063 Predicted transcriptional regulators [Transcription]; Region: COG1725 548479003064 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 548479003065 DNA-binding site [nucleotide binding]; DNA binding site 548479003066 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 548479003067 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 548479003068 Walker A/P-loop; other site 548479003069 ATP binding site [chemical binding]; other site 548479003070 Q-loop/lid; other site 548479003071 ABC transporter signature motif; other site 548479003072 Walker B; other site 548479003073 D-loop; other site 548479003074 H-loop/switch region; other site 548479003075 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 548479003076 ATP-grasp domain; Region: ATP-grasp; pfam02222 548479003077 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 548479003078 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; pfam03816 548479003079 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; pfam03816 548479003080 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 548479003081 active site 548479003082 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 548479003083 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 548479003084 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 548479003085 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 548479003086 Ligand binding site; other site 548479003087 Putative Catalytic site; other site 548479003088 DXD motif; other site 548479003089 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 548479003090 amidase catalytic site [active] 548479003091 Zn binding residues [ion binding]; other site 548479003092 substrate binding site [chemical binding]; other site 548479003093 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479003094 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479003095 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479003096 Bacterial transferase hexapeptide (six repeats); Region: Hexapep; pfam00132 548479003097 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 548479003098 putative trimer interface [polypeptide binding]; other site 548479003099 putative active site [active] 548479003100 putative substrate binding site [chemical binding]; other site 548479003101 putative CoA binding site [chemical binding]; other site 548479003102 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 548479003103 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 548479003104 inhibitor-cofactor binding pocket; inhibition site 548479003105 pyridoxal 5'-phosphate binding site [chemical binding]; other site 548479003106 catalytic residue [active] 548479003107 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 548479003108 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 548479003109 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 548479003110 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 548479003111 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 548479003112 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 548479003113 active site 548479003114 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 548479003115 homodimer interface [polypeptide binding]; other site 548479003116 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 548479003117 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 548479003118 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 548479003119 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 548479003120 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 548479003121 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 548479003122 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 548479003123 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 548479003124 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 548479003125 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 548479003126 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 548479003127 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 548479003128 active site 548479003129 homodimer interface [polypeptide binding]; other site 548479003130 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 548479003131 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 548479003132 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 548479003133 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 548479003134 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 548479003135 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 548479003136 Rhamnan synthesis protein F; Region: RgpF; pfam05045 548479003137 Glycosyl hydrolase family 99-like domain of WbsX-like glycosyltransferases; Region: Glyco_tran_WbsX; cd11579 548479003138 putative ligand binding site [chemical binding]; other site 548479003139 putative catalytic site [active] 548479003140 Rhamnan synthesis protein F; Region: RgpF; pfam05045 548479003141 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 548479003142 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 548479003143 Walker A/P-loop; other site 548479003144 ATP binding site [chemical binding]; other site 548479003145 Q-loop/lid; other site 548479003146 ABC transporter signature motif; other site 548479003147 Walker B; other site 548479003148 D-loop; other site 548479003149 H-loop/switch region; other site 548479003150 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 548479003151 putative carbohydrate binding site [chemical binding]; other site 548479003152 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 548479003153 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 548479003154 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479003155 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479003156 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479003157 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 548479003158 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 548479003159 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 548479003160 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 548479003161 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 548479003162 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 548479003163 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 548479003164 Predicted membrane protein (DUF2142); Region: DUF2142; pfam09913 548479003165 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 548479003166 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 548479003167 NAD binding site [chemical binding]; other site 548479003168 substrate binding site [chemical binding]; other site 548479003169 homodimer interface [polypeptide binding]; other site 548479003170 active site 548479003171 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 548479003172 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 548479003173 Ligand binding site; other site 548479003174 Putative Catalytic site; other site 548479003175 DXD motif; other site 548479003176 Uncharacterized conserved protein (DUF2304); Region: DUF2304; pfam10066 548479003177 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 548479003178 active site 548479003179 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 548479003180 homodimer interface [polypeptide binding]; other site 548479003181 Predicted membrane protein (DUF2142); Region: DUF2142; pfam09913 548479003182 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 548479003183 active site 548479003184 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 548479003185 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 548479003186 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 548479003187 active site 548479003188 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 548479003189 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 548479003190 NADP binding site [chemical binding]; other site 548479003191 active site 548479003192 putative substrate binding site [chemical binding]; other site 548479003193 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 548479003194 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 548479003195 substrate binding site; other site 548479003196 tetramer interface; other site 548479003197 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 548479003198 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 548479003199 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 548479003200 Transcription factor WhiB; Region: Whib; pfam02467 548479003201 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 548479003202 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 548479003203 active site 548479003204 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 548479003205 RDD family; Region: RDD; pfam06271 548479003206 Integral membrane protein DUF95; Region: DUF95; pfam01944 548479003207 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 548479003208 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 548479003209 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 548479003210 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 548479003211 peptide chain release factor 1; Validated; Region: prfA; PRK00591 548479003212 This domain is found in peptide chain release factors; Region: PCRF; smart00937 548479003213 RF-1 domain; Region: RF-1; pfam00472 548479003214 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 548479003215 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 548479003216 S-adenosylmethionine binding site [chemical binding]; other site 548479003217 HlyD family secretion protein; Region: HlyD_3; pfam13437 548479003218 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 548479003219 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 548479003220 Walker A/P-loop; other site 548479003221 ATP binding site [chemical binding]; other site 548479003222 Q-loop/lid; other site 548479003223 ABC transporter signature motif; other site 548479003224 Walker B; other site 548479003225 D-loop; other site 548479003226 H-loop/switch region; other site 548479003227 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 548479003228 FtsX-like permease family; Region: FtsX; pfam02687 548479003229 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 548479003230 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 548479003231 dimer interface [polypeptide binding]; other site 548479003232 phosphorylation site [posttranslational modification] 548479003233 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 548479003234 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 548479003235 ATP binding site [chemical binding]; other site 548479003236 Mg2+ binding site [ion binding]; other site 548479003237 G-X-G motif; other site 548479003238 Response regulator receiver domain; Region: Response_reg; pfam00072 548479003239 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 548479003240 active site 548479003241 phosphorylation site [posttranslational modification] 548479003242 intermolecular recognition site; other site 548479003243 dimerization interface [polypeptide binding]; other site 548479003244 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 548479003245 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 548479003246 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 548479003247 Mg++ binding site [ion binding]; other site 548479003248 putative catalytic motif [active] 548479003249 substrate binding site [chemical binding]; other site 548479003250 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 548479003251 ATP synthase subunit C; Region: ATP-synt_C; cl00466 548479003252 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 548479003253 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; cl17210 548479003254 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 548479003255 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 548479003256 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 548479003257 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 548479003258 beta subunit interaction interface [polypeptide binding]; other site 548479003259 Walker A motif; other site 548479003260 ATP binding site [chemical binding]; other site 548479003261 Walker B motif; other site 548479003262 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 548479003263 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 548479003264 core domain interface [polypeptide binding]; other site 548479003265 delta subunit interface [polypeptide binding]; other site 548479003266 epsilon subunit interface [polypeptide binding]; other site 548479003267 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 548479003268 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 548479003269 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 548479003270 alpha subunit interaction interface [polypeptide binding]; other site 548479003271 Walker A motif; other site 548479003272 ATP binding site [chemical binding]; other site 548479003273 Walker B motif; other site 548479003274 inhibitor binding site; inhibition site 548479003275 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 548479003276 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 548479003277 gamma subunit interface [polypeptide binding]; other site 548479003278 epsilon subunit interface [polypeptide binding]; other site 548479003279 LBP interface [polypeptide binding]; other site 548479003280 Protein of unknown function (DUF2550); Region: DUF2550; pfam10739 548479003281 hypothetical protein; Provisional; Region: PRK03298 548479003282 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 548479003283 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 548479003284 active site 548479003285 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 548479003286 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 548479003287 DivIVA protein; Region: DivIVA; pfam05103 548479003288 This family is most closely related to the oligosaccharide phosphorylase domain family and other unidentified sequences. Oligosaccharide phosphorylase catalyzes the breakdown of oligosaccharides into glucose-1-phosphate units. They are important...; Region: GT1_Glycogen_Phosphorylase_like; cd04299 548479003289 putative homodimer interface [polypeptide binding]; other site 548479003290 putative active site pocket [active] 548479003291 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 548479003292 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 548479003293 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 548479003294 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 548479003295 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 548479003296 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 548479003297 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 548479003298 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 548479003299 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 548479003300 active site 548479003301 catalytic site [active] 548479003302 glycogen branching enzyme; Provisional; Region: PRK05402 548479003303 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 548479003304 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 548479003305 active site 548479003306 catalytic site [active] 548479003307 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 548479003308 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 548479003309 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479003310 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479003311 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479003312 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479003313 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479003314 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479003315 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 548479003316 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 548479003317 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479003318 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479003319 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479003320 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479003321 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479003322 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479003323 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cl17457 548479003324 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, alpha subunit [Energy production and conversion]; Region: PorA; COG0674 548479003325 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 548479003326 dimer interface [polypeptide binding]; other site 548479003327 PYR/PP interface [polypeptide binding]; other site 548479003328 TPP binding site [chemical binding]; other site 548479003329 substrate binding site [chemical binding]; other site 548479003330 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 548479003331 4Fe-4S binding domain; Region: Fer4; pfam00037 548479003332 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 548479003333 Thiamine pyrophosphate (TPP family), Pyruvate ferredoxin/flavodoxin oxidoreductase (PFOR) subfamily, TPP-binding module; PFOR catalyzes the oxidative decarboxylation of pyruvate to form acetyl-CoA, a crucial step in many metabolic pathways. Archaea; Region: TPP_PFOR; cd02018 548479003334 TPP-binding site [chemical binding]; other site 548479003335 dimer interface [polypeptide binding]; other site 548479003336 putative bifunctional glutamate synthase subunit beta/2-polyprenylphenol hydroxylase; Provisional; Region: PRK12779 548479003337 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 548479003338 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 548479003339 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 548479003340 FAD binding pocket [chemical binding]; other site 548479003341 FAD binding motif [chemical binding]; other site 548479003342 phosphate binding motif [ion binding]; other site 548479003343 beta-alpha-beta structure motif; other site 548479003344 NAD binding pocket [chemical binding]; other site 548479003345 Iron coordination center [ion binding]; other site 548479003346 Helix-turn-helix domain; Region: HTH_17; pfam12728 548479003347 Vitamin K epoxide reductase family in bacteria; Region: VKOR_5; cd12922 548479003348 putative active site [active] 548479003349 redox center [active] 548479003350 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 548479003351 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479003352 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479003353 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479003354 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 548479003355 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 548479003356 active site 548479003357 HIGH motif; other site 548479003358 dimer interface [polypeptide binding]; other site 548479003359 KMSKS motif; other site 548479003360 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 548479003361 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 548479003362 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 548479003363 active site 548479003364 catalytic site [active] 548479003365 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 548479003366 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 548479003367 Ligand Binding Site [chemical binding]; other site 548479003368 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 548479003369 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 548479003370 active site 548479003371 DNA binding site [nucleotide binding] 548479003372 Int/Topo IB signature motif; other site 548479003373 aspartate aminotransferase; Provisional; Region: PRK05764 548479003374 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 548479003375 pyridoxal 5'-phosphate binding site [chemical binding]; other site 548479003376 homodimer interface [polypeptide binding]; other site 548479003377 catalytic residue [active] 548479003378 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 548479003379 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 548479003380 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 548479003381 putative homodimer interface [polypeptide binding]; other site 548479003382 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 548479003383 heterodimer interface [polypeptide binding]; other site 548479003384 homodimer interface [polypeptide binding]; other site 548479003385 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 548479003386 nucleotide binding site/active site [active] 548479003387 HIT family signature motif; other site 548479003388 catalytic residue [active] 548479003389 hypothetical protein; Reviewed; Region: PRK07914 548479003390 comEA protein; Region: comE; TIGR01259 548479003391 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 548479003392 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 548479003393 ABC-ATPase subunit interface; other site 548479003394 dimer interface [polypeptide binding]; other site 548479003395 putative PBP binding regions; other site 548479003396 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 548479003397 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 548479003398 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 548479003399 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 548479003400 metal binding site [ion binding]; metal-binding site 548479003401 aminoacyl-tRNA ligase; Region: PLN02563 548479003402 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 548479003403 active site 548479003404 HIGH motif; other site 548479003405 nucleotide binding site [chemical binding]; other site 548479003406 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 548479003407 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 548479003408 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 548479003409 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 548479003410 active site 548479003411 KMSKS motif; other site 548479003412 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 548479003413 tRNA binding surface [nucleotide binding]; other site 548479003414 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 548479003415 GTP-binding protein LepA; Provisional; Region: PRK05433 548479003416 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 548479003417 G1 box; other site 548479003418 putative GEF interaction site [polypeptide binding]; other site 548479003419 GTP/Mg2+ binding site [chemical binding]; other site 548479003420 Switch I region; other site 548479003421 G2 box; other site 548479003422 G3 box; other site 548479003423 Switch II region; other site 548479003424 G4 box; other site 548479003425 G5 box; other site 548479003426 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 548479003427 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 548479003428 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 548479003429 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 548479003430 coproporphyrinogen III oxidase; Validated; Region: PRK05628 548479003431 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 548479003432 Divergent AAA domain; Region: AAA_4; pfam04326 548479003433 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 548479003434 MarR family; Region: MarR_2; pfam12802 548479003435 RelB antitoxin; Region: RelB; cl01171 548479003436 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 548479003437 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479003438 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479003439 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479003440 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 548479003441 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 548479003442 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 548479003443 chaperone protein DnaJ; Provisional; Region: PRK14278 548479003444 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 548479003445 HSP70 interaction site [polypeptide binding]; other site 548479003446 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 548479003447 Zn binding sites [ion binding]; other site 548479003448 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 548479003449 dimer interface [polypeptide binding]; other site 548479003450 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 548479003451 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 548479003452 PhoH-like protein; Region: PhoH; pfam02562 548479003453 metal-binding heat shock protein; Provisional; Region: PRK00016 548479003454 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 548479003455 Domain of unknown function DUF21; Region: DUF21; pfam01595 548479003456 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 548479003457 Transporter associated domain; Region: CorC_HlyC; smart01091 548479003458 GTPase Era; Reviewed; Region: era; PRK00089 548479003459 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 548479003460 G1 box; other site 548479003461 GTP/Mg2+ binding site [chemical binding]; other site 548479003462 Switch I region; other site 548479003463 G2 box; other site 548479003464 Switch II region; other site 548479003465 G3 box; other site 548479003466 G4 box; other site 548479003467 G5 box; other site 548479003468 KH domain; Region: KH_2; pfam07650 548479003469 Dehydratase family; Region: ILVD_EDD; cl00340 548479003470 DivIVA domain; Region: DivI1A_domain; TIGR03544 548479003471 DivIVA domain; Region: DivI1A_domain; TIGR03544 548479003472 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 548479003473 DEAD-like helicases superfamily; Region: DEXDc; smart00487 548479003474 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 548479003475 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 548479003476 ATP binding site [chemical binding]; other site 548479003477 putative Mg++ binding site [ion binding]; other site 548479003478 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 548479003479 nucleotide binding region [chemical binding]; other site 548479003480 ATP-binding site [chemical binding]; other site 548479003481 Domain of unknown function (DUF3516); Region: DUF3516; pfam12029 548479003482 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 548479003483 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 548479003484 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 548479003485 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 548479003486 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 548479003487 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 548479003488 active site 548479003489 KMSKS motif; other site 548479003490 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 548479003491 dimerization interface [polypeptide binding]; other site 548479003492 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 548479003493 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 548479003494 dimer interface [polypeptide binding]; other site 548479003495 putative CheW interface [polypeptide binding]; other site 548479003496 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 548479003497 HAMP domain; Region: HAMP; pfam00672 548479003498 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 548479003499 dimer interface [polypeptide binding]; other site 548479003500 putative CheW interface [polypeptide binding]; other site 548479003501 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 548479003502 Transcriptional regulator [Transcription]; Region: IclR; COG1414 548479003503 Bacterial transcriptional regulator; Region: IclR; pfam01614 548479003504 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 548479003505 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 548479003506 substrate binding site [chemical binding]; other site 548479003507 ligand binding site [chemical binding]; other site 548479003508 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 548479003509 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 548479003510 substrate binding site [chemical binding]; other site 548479003511 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 548479003512 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 548479003513 hinge; other site 548479003514 active site 548479003515 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 548479003516 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 548479003517 putative acyl-acceptor binding pocket; other site 548479003518 Protein of unknown function (DUF732); Region: DUF732; pfam05305 548479003519 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 548479003520 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 548479003521 ATP-grasp domain; Region: ATP-grasp_4; cl17255 548479003522 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 548479003523 ATP-grasp domain; Region: ATP-grasp_4; cl17255 548479003524 glycerol kinase; Provisional; Region: glpK; PRK00047 548479003525 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 548479003526 nucleotide binding site [chemical binding]; other site 548479003527 sn-glycerol-3-phosphate dehydrogenase subunit C; Provisional; Region: glpC; PRK11168 548479003528 Cysteine-rich domain; Region: CCG; pfam02754 548479003529 Cysteine-rich domain; Region: CCG; pfam02754 548479003530 anaerobic glycerol-3-phosphate dehydrogenase subunit B; Validated; Region: PRK05329 548479003531 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 548479003532 glycerol-3-phosphate dehydrogenase, anaerobic, A subunit; Region: glycerol3P_GlpA; TIGR03377 548479003533 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 548479003534 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 548479003535 catalytic residues [active] 548479003536 catalytic nucleophile [active] 548479003537 Recombinase; Region: Recombinase; pfam07508 548479003538 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 548479003539 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 548479003540 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 548479003541 catalytic residues [active] 548479003542 catalytic nucleophile [active] 548479003543 Recombinase; Region: Recombinase; pfam07508 548479003544 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 548479003545 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 548479003546 amidase catalytic site [active] 548479003547 Zn binding residues [ion binding]; other site 548479003548 substrate binding site [chemical binding]; other site 548479003549 Cpl-7 lysozyme C-terminal domain; Region: Cpl-7; pfam08230 548479003550 Cpl-7 lysozyme C-terminal domain; Region: Cpl-7; cl07020 548479003551 Domain of unknown function (DUF4274); Region: DUF4274; pfam14096 548479003552 Uncharacterized protein family (UPF0167); Region: UPF0167; pfam03691 548479003553 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 548479003554 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 548479003555 non-specific DNA binding site [nucleotide binding]; other site 548479003556 salt bridge; other site 548479003557 sequence-specific DNA binding site [nucleotide binding]; other site 548479003558 Transposon-encoded protein TnpV; Region: TnpV; pfam14198 548479003559 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 548479003560 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 548479003561 G1 box; other site 548479003562 putative GEF interaction site [polypeptide binding]; other site 548479003563 GTP/Mg2+ binding site [chemical binding]; other site 548479003564 Switch I region; other site 548479003565 G2 box; other site 548479003566 G3 box; other site 548479003567 Switch II region; other site 548479003568 G4 box; other site 548479003569 G5 box; other site 548479003570 Tet_II: This subfamily represents domain II of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to domain II of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome...; Region: Tet_II; cd03690 548479003571 EF-G_domain IV_RPP domain is a part of bacterial ribosomal protected proteins (RPP) family. RPPs such as tetracycline resistance proteins Tet(M) and Tet(O) mediate tetracycline resistance in both gram-positive and -negative species. Tetracyclines inhibit...; Region: Tet_like_IV; cd01684 548479003572 Tet_C: C-terminus of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to the C terminal domains of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome in a...; Region: Tet_C; cd03711 548479003573 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 548479003574 DNA binding residues [nucleotide binding] 548479003575 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 548479003576 Domain of unknown function (DUF4253); Region: DUF4253; pfam14062 548479003577 Holin family; Region: Phage_holin_4; pfam05105 548479003578 Protein of unknown function (DUF1617); Region: DUF1617; pfam07761 548479003579 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 548479003580 Phage-related protein [Function unknown]; Region: COG4722 548479003581 Phage tail protein; Region: Sipho_tail; cl17486 548479003582 tape measure domain; Region: tape_meas_nterm; TIGR02675 548479003583 Phage-related protein [Function unknown]; Region: COG5412 548479003584 membrane protein P6; Region: PHA01399 548479003585 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 548479003586 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 548479003587 phage major tail protein, phi13 family; Region: maj_tail_phi13; TIGR01603 548479003588 VanZ like family; Region: VanZ; pfam04892 548479003589 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 548479003590 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 548479003591 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 548479003592 oligomerization interface [polypeptide binding]; other site 548479003593 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 548479003594 Phage capsid family; Region: Phage_capsid; pfam05065 548479003595 Clp protease; Region: CLP_protease; pfam00574 548479003596 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 548479003597 oligomer interface [polypeptide binding]; other site 548479003598 active site residues [active] 548479003599 Phage-related protein [Function unknown]; Region: COG4695 548479003600 Phage portal protein; Region: Phage_portal; pfam04860 548479003601 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 548479003602 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 548479003603 cofactor binding site; other site 548479003604 DNA binding site [nucleotide binding] 548479003605 substrate interaction site [chemical binding]; other site 548479003606 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 548479003607 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 548479003608 ParB-like nuclease domain; Region: ParBc; pfam02195 548479003609 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 548479003610 DNA methylase; Region: N6_N4_Mtase; pfam01555 548479003611 S-adenosylmethionine synthetase; Provisional; Region: PRK12459 548479003612 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 548479003613 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 548479003614 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 548479003615 Phage terminase, small subunit; Region: Terminase_4; cl01525 548479003616 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 548479003617 active site 548479003618 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 548479003619 ATP binding site [chemical binding]; other site 548479003620 putative Mg++ binding site [ion binding]; other site 548479003621 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 548479003622 VRR-NUC domain; Region: VRR_NUC; pfam08774 548479003623 Type VIII secretion system (T8SS), CsgF protein; Region: CsgF; cl08082 548479003624 Primase C terminal 1 (PriCT-1); Region: PriCT_1; smart00942 548479003625 D5 N terminal like; Region: D5_N; pfam08706 548479003626 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 548479003627 Divergent AAA domain; Region: AAA_4; pfam04326 548479003628 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_A; cd08642 548479003629 DNA binding site [nucleotide binding] 548479003630 active site 548479003631 catalytic site [active] 548479003632 Family A polymerase primarily fills DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A; cl02626 548479003633 Protein of unknown function (DUF2815); Region: DUF2815; pfam10991 548479003634 AP2 domain; Region: AP2; pfam00847 548479003635 Protein of unknown function (DUF2800); Region: DUF2800; pfam10926 548479003636 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 548479003637 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 548479003638 Predicted ATPase [General function prediction only]; Region: COG5293 548479003639 Uncharacterized protein conserved in bacteria (DUF2326); Region: DUF2326; pfam10088 548479003640 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 548479003641 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 548479003642 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 548479003643 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 548479003644 DNA methylase; Region: N6_N4_Mtase; pfam01555 548479003645 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 548479003646 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 548479003647 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 548479003648 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 548479003649 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 548479003650 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 548479003651 Walker A/P-loop; other site 548479003652 ATP binding site [chemical binding]; other site 548479003653 Q-loop/lid; other site 548479003654 ABC transporter signature motif; other site 548479003655 Walker B; other site 548479003656 D-loop; other site 548479003657 H-loop/switch region; other site 548479003658 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 548479003659 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 548479003660 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 548479003661 Walker A/P-loop; other site 548479003662 ATP binding site [chemical binding]; other site 548479003663 Q-loop/lid; other site 548479003664 ABC transporter signature motif; other site 548479003665 Walker B; other site 548479003666 D-loop; other site 548479003667 H-loop/switch region; other site 548479003668 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 548479003669 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 548479003670 Walker A/P-loop; other site 548479003671 ATP binding site [chemical binding]; other site 548479003672 Q-loop/lid; other site 548479003673 ABC transporter signature motif; other site 548479003674 Walker B; other site 548479003675 D-loop; other site 548479003676 H-loop/switch region; other site 548479003677 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 548479003678 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 548479003679 Walker A/P-loop; other site 548479003680 ATP binding site [chemical binding]; other site 548479003681 Q-loop/lid; other site 548479003682 ABC transporter signature motif; other site 548479003683 Walker B; other site 548479003684 D-loop; other site 548479003685 H-loop/switch region; other site 548479003686 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 548479003687 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; cl09823 548479003688 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 548479003689 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 548479003690 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 548479003691 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 548479003692 Walker A/P-loop; other site 548479003693 ATP binding site [chemical binding]; other site 548479003694 Q-loop/lid; other site 548479003695 ABC transporter signature motif; other site 548479003696 Walker B; other site 548479003697 D-loop; other site 548479003698 H-loop/switch region; other site 548479003699 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 548479003700 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 548479003701 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 548479003702 pentamer interface [polypeptide binding]; other site 548479003703 dodecaamer interface [polypeptide binding]; other site 548479003704 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 548479003705 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 548479003706 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 548479003707 Methyltransferase domain; Region: Methyltransf_26; pfam13659 548479003708 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 548479003709 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 548479003710 putative active site [active] 548479003711 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 548479003712 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 548479003713 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 548479003714 NodB motif; other site 548479003715 active site 548479003716 catalytic site [active] 548479003717 Zn binding site [ion binding]; other site 548479003718 Ion channel; Region: Ion_trans_2; pfam07885 548479003719 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479003720 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479003721 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479003722 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 548479003723 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 548479003724 putative substrate binding site 1 [chemical binding]; other site 548479003725 Na binding site 1 [ion binding]; other site 548479003726 putative substrate binding site 2 [chemical binding]; other site 548479003727 Na2 binding site [ion binding]; other site 548479003728 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 548479003729 ATP-grasp domain; Region: ATP-grasp; pfam02222 548479003730 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 548479003731 hypothetical protein; Validated; Region: PRK00194 548479003732 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 548479003733 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 548479003734 active site 548479003735 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 548479003736 active site 548479003737 trimer interface [polypeptide binding]; other site 548479003738 allosteric site; other site 548479003739 active site lid [active] 548479003740 hexamer (dimer of trimers) interface [polypeptide binding]; other site 548479003741 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 548479003742 FMN binding site [chemical binding]; other site 548479003743 dimer interface [polypeptide binding]; other site 548479003744 Cadmium resistance transporter; Region: Cad; pfam03596 548479003745 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 548479003746 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 548479003747 substrate binding pocket [chemical binding]; other site 548479003748 membrane-bound complex binding site; other site 548479003749 hinge residues; other site 548479003750 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 548479003751 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 548479003752 dimer interface [polypeptide binding]; other site 548479003753 conserved gate region; other site 548479003754 putative PBP binding loops; other site 548479003755 ABC-ATPase subunit interface; other site 548479003756 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 548479003757 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 548479003758 Walker A/P-loop; other site 548479003759 ATP binding site [chemical binding]; other site 548479003760 Q-loop/lid; other site 548479003761 ABC transporter signature motif; other site 548479003762 Walker B; other site 548479003763 D-loop; other site 548479003764 H-loop/switch region; other site 548479003765 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 548479003766 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 548479003767 non-specific DNA binding site [nucleotide binding]; other site 548479003768 salt bridge; other site 548479003769 sequence-specific DNA binding site [nucleotide binding]; other site 548479003770 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 548479003771 Protein of unknown function DUF86; Region: DUF86; cl01031 548479003772 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 548479003773 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 548479003774 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 548479003775 Walker A/P-loop; other site 548479003776 ATP binding site [chemical binding]; other site 548479003777 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 548479003778 Q-loop/lid; other site 548479003779 Q-loop/lid; other site 548479003780 ABC transporter signature motif; other site 548479003781 Walker B; other site 548479003782 D-loop; other site 548479003783 H-loop/switch region; other site 548479003784 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 548479003785 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 548479003786 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 548479003787 Walker A/P-loop; other site 548479003788 ATP binding site [chemical binding]; other site 548479003789 Q-loop/lid; other site 548479003790 ABC transporter signature motif; other site 548479003791 Walker B; other site 548479003792 D-loop; other site 548479003793 H-loop/switch region; other site 548479003794 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 548479003795 active site pocket [active] 548479003796 oxyanion hole [active] 548479003797 catalytic triad [active] 548479003798 active site nucleophile [active] 548479003799 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 548479003800 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 548479003801 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_14; cd04672 548479003802 nudix motif; other site 548479003803 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 548479003804 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 548479003805 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cd02409 548479003806 G-X-X-G motif; other site 548479003807 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 548479003808 RimM N-terminal domain; Region: RimM; pfam01782 548479003809 PRC-barrel domain; Region: PRC; pfam05239 548479003810 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 548479003811 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 548479003812 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 548479003813 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 548479003814 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 548479003815 Catalytic site [active] 548479003816 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 548479003817 RNA/DNA hybrid binding site [nucleotide binding]; other site 548479003818 active site 548479003819 Protein of unknown function (DUF2469); Region: DUF2469; pfam10611 548479003820 hypothetical protein; Reviewed; Region: PRK12497 548479003821 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 548479003822 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 548479003823 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 548479003824 Walker A motif; other site 548479003825 ATP binding site [chemical binding]; other site 548479003826 Walker B motif; other site 548479003827 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 548479003828 DNA protecting protein DprA; Region: dprA; TIGR00732 548479003829 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 548479003830 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 548479003831 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 548479003832 active site 548479003833 DNA binding site [nucleotide binding] 548479003834 Int/Topo IB signature motif; other site 548479003835 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 548479003836 Peptidase family M23; Region: Peptidase_M23; pfam01551 548479003837 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 548479003838 rRNA interaction site [nucleotide binding]; other site 548479003839 S8 interaction site; other site 548479003840 putative laminin-1 binding site; other site 548479003841 elongation factor Ts; Provisional; Region: tsf; PRK09377 548479003842 Elongation factor TS; Region: EF_TS; pfam00889 548479003843 Elongation factor TS; Region: EF_TS; pfam00889 548479003844 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 548479003845 putative nucleotide binding site [chemical binding]; other site 548479003846 uridine monophosphate binding site [chemical binding]; other site 548479003847 homohexameric interface [polypeptide binding]; other site 548479003848 ribosome recycling factor; Reviewed; Region: frr; PRK00083 548479003849 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 548479003850 hinge region; other site 548479003851 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 548479003852 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 548479003853 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14459 548479003854 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 548479003855 FeS/SAM binding site; other site 548479003856 DivIVA domain repeat protein; Region: divI1A_rptt_fam; TIGR03543 548479003857 DivIVA domain; Region: DivI1A_domain; TIGR03544 548479003858 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 548479003859 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 548479003860 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 548479003861 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 548479003862 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 548479003863 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 548479003864 active site 548479003865 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 548479003866 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 548479003867 putative substrate binding region [chemical binding]; other site 548479003868 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 548479003869 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 548479003870 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 548479003871 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 548479003872 GTPase CgtA; Reviewed; Region: obgE; PRK12296 548479003873 GTP1/OBG; Region: GTP1_OBG; pfam01018 548479003874 Obg GTPase; Region: Obg; cd01898 548479003875 G1 box; other site 548479003876 GTP/Mg2+ binding site [chemical binding]; other site 548479003877 Switch I region; other site 548479003878 G2 box; other site 548479003879 G3 box; other site 548479003880 Switch II region; other site 548479003881 G4 box; other site 548479003882 G5 box; other site 548479003883 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 548479003884 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 548479003885 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 548479003886 active site 548479003887 (T/H)XGH motif; other site 548479003888 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 548479003889 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 548479003890 catalytic core [active] 548479003891 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 548479003892 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 548479003893 Major Facilitator Superfamily; Region: MFS_1; pfam07690 548479003894 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 548479003895 HTH-like domain; Region: HTH_21; pfam13276 548479003896 Integrase core domain; Region: rve; pfam00665 548479003897 Phage capsid family; Region: Phage_capsid; pfam05065 548479003898 Domain of unknown function (DUF4355); Region: DUF4355; pfam14265 548479003899 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 548479003900 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 548479003901 dimer interface [polypeptide binding]; other site 548479003902 phosphorylation site [posttranslational modification] 548479003903 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 548479003904 ATP binding site [chemical binding]; other site 548479003905 Mg2+ binding site [ion binding]; other site 548479003906 G-X-G motif; other site 548479003907 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 548479003908 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 548479003909 active site 548479003910 phosphorylation site [posttranslational modification] 548479003911 intermolecular recognition site; other site 548479003912 dimerization interface [polypeptide binding]; other site 548479003913 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 548479003914 DNA binding site [nucleotide binding] 548479003915 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 548479003916 PhoU domain; Region: PhoU; pfam01895 548479003917 PhoU domain; Region: PhoU; pfam01895 548479003918 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 548479003919 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 548479003920 Walker A/P-loop; other site 548479003921 ATP binding site [chemical binding]; other site 548479003922 Q-loop/lid; other site 548479003923 ABC transporter signature motif; other site 548479003924 Walker B; other site 548479003925 D-loop; other site 548479003926 H-loop/switch region; other site 548479003927 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 548479003928 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 548479003929 dimer interface [polypeptide binding]; other site 548479003930 conserved gate region; other site 548479003931 putative PBP binding loops; other site 548479003932 ABC-ATPase subunit interface; other site 548479003933 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 548479003934 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 548479003935 dimer interface [polypeptide binding]; other site 548479003936 conserved gate region; other site 548479003937 putative PBP binding loops; other site 548479003938 ABC-ATPase subunit interface; other site 548479003939 PBP superfamily domain; Region: PBP_like_2; cl17296 548479003940 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 548479003941 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 548479003942 TrkA-N domain; Region: TrkA_N; pfam02254 548479003943 TrkA-C domain; Region: TrkA_C; pfam02080 548479003944 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 548479003945 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 548479003946 peptide chain release factor 2; Validated; Region: prfB; PRK00578 548479003947 This domain is found in peptide chain release factors; Region: PCRF; smart00937 548479003948 RF-1 domain; Region: RF-1; pfam00472 548479003949 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 548479003950 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 548479003951 Walker A/P-loop; other site 548479003952 ATP binding site [chemical binding]; other site 548479003953 Q-loop/lid; other site 548479003954 ABC transporter signature motif; other site 548479003955 Walker B; other site 548479003956 D-loop; other site 548479003957 H-loop/switch region; other site 548479003958 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 548479003959 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 548479003960 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 548479003961 Peptidase family M23; Region: Peptidase_M23; pfam01551 548479003962 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 548479003963 SmpB-tmRNA interface; other site 548479003964 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 548479003965 putative ADP-ribose binding site [chemical binding]; other site 548479003966 putative active site [active] 548479003967 HIRAN domain; Region: HIRAN; cl07418 548479003968 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 548479003969 non-specific DNA binding site [nucleotide binding]; other site 548479003970 salt bridge; other site 548479003971 sequence-specific DNA binding site [nucleotide binding]; other site 548479003972 HNH endonuclease; Region: HNH; pfam01844 548479003973 active site 548479003974 Phage Terminase; Region: Terminase_1; pfam03354 548479003975 AAA ATPase domain; Region: AAA_16; pfam13191 548479003976 Phage-related protein [Function unknown]; Region: COG4695; cl01923 548479003977 Phage portal protein; Region: Phage_portal; pfam04860 548479003978 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 548479003979 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 548479003980 membrane protein P6; Region: PHA01399 548479003981 NlpC/P60 family; Region: NLPC_P60; cl17555 548479003982 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 548479003983 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 548479003984 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 548479003985 active site 548479003986 DNA binding site [nucleotide binding] 548479003987 Int/Topo IB signature motif; other site 548479003988 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like6; cd05664 548479003989 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 548479003990 metal binding site [ion binding]; metal-binding site 548479003991 putative dimer interface [polypeptide binding]; other site 548479003992 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 548479003993 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 548479003994 RNA binding surface [nucleotide binding]; other site 548479003995 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 548479003996 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 548479003997 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 548479003998 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 548479003999 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 548479004000 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 548479004001 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 548479004002 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 548479004003 substrate binding site [chemical binding]; other site 548479004004 ATP binding site [chemical binding]; other site 548479004005 Protein of unknown function (DUF998); Region: DUF998; pfam06197 548479004006 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 548479004007 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 548479004008 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 548479004009 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 548479004010 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 548479004011 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 548479004012 Protein of unknown function (DUF3046); Region: DUF3046; pfam11248 548479004013 prolyl-tRNA synthetase; Provisional; Region: PRK09194 548479004014 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 548479004015 dimer interface [polypeptide binding]; other site 548479004016 motif 1; other site 548479004017 active site 548479004018 motif 2; other site 548479004019 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 548479004020 putative deacylase active site [active] 548479004021 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 548479004022 active site 548479004023 motif 3; other site 548479004024 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 548479004025 anticodon binding site; other site 548479004026 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 548479004027 active site 548479004028 catalytic residues [active] 548479004029 metal binding site [ion binding]; metal-binding site 548479004030 Protein of unknown function (DUF3145); Region: DUF3145; pfam11343 548479004031 Protein of unknown function (DUF3052); Region: DUF3052; pfam11253 548479004032 trigger factor; Provisional; Region: tig; PRK01490 548479004033 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 548479004034 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 548479004035 Clp protease; Region: CLP_protease; pfam00574 548479004036 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 548479004037 oligomer interface [polypeptide binding]; other site 548479004038 active site residues [active] 548479004039 ATP-dependent Clp protease proteolytic subunit; Reviewed; Region: PRK12553 548479004040 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 548479004041 oligomer interface [polypeptide binding]; other site 548479004042 active site residues [active] 548479004043 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 548479004044 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 548479004045 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 548479004046 Walker A motif; other site 548479004047 ATP binding site [chemical binding]; other site 548479004048 Walker B motif; other site 548479004049 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 548479004050 chorismate mutase; Provisional; Region: PRK09239 548479004051 Domain of unknown function (DUF4418); Region: DUF4418; pfam14387 548479004052 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 548479004053 FtsX-like permease family; Region: FtsX; pfam02687 548479004054 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 548479004055 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 548479004056 Walker A/P-loop; other site 548479004057 ATP binding site [chemical binding]; other site 548479004058 Q-loop/lid; other site 548479004059 ABC transporter signature motif; other site 548479004060 Walker B; other site 548479004061 D-loop; other site 548479004062 H-loop/switch region; other site 548479004063 Iron permease FTR1 family; Region: FTR1; cl00475 548479004064 Fe2+ transport protein; Region: Iron_transport; cl01377 548479004065 Predicted membrane protein [Function unknown]; Region: COG4393 548479004066 Predicted membrane protein (DUF2318); Region: DUF2318; pfam10080 548479004067 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 548479004068 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 548479004069 FtsX-like permease family; Region: FtsX; pfam02687 548479004070 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 548479004071 FtsX-like permease family; Region: FtsX; pfam02687 548479004072 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 548479004073 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 548479004074 Walker A/P-loop; other site 548479004075 ATP binding site [chemical binding]; other site 548479004076 Q-loop/lid; other site 548479004077 ABC transporter signature motif; other site 548479004078 Walker B; other site 548479004079 D-loop; other site 548479004080 H-loop/switch region; other site 548479004081 FMN-binding domain; Region: FMN_bind; cl01081 548479004082 ApbE family; Region: ApbE; pfam02424 548479004083 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 548479004084 MobA-like NTP transferase domain; Region: NTP_transf_3; pfam12804 548479004085 active site 548479004086 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 548479004087 MPT binding site; other site 548479004088 trimer interface [polypeptide binding]; other site 548479004089 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 548479004090 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 548479004091 putative substrate translocation pore; other site 548479004092 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 548479004093 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 548479004094 [4Fe-4S] binding site [ion binding]; other site 548479004095 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 548479004096 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 548479004097 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 548479004098 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 548479004099 molybdopterin cofactor binding site; other site 548479004100 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 548479004101 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 548479004102 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 548479004103 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 548479004104 valyl-tRNA synthetase; Reviewed; Region: valS; PRK13208 548479004105 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 548479004106 active site 548479004107 HIGH motif; other site 548479004108 nucleotide binding site [chemical binding]; other site 548479004109 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 548479004110 active site 548479004111 KMSKS motif; other site 548479004112 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 548479004113 tRNA binding surface [nucleotide binding]; other site 548479004114 anticodon binding site; other site 548479004115 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 548479004116 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 548479004117 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 548479004118 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 548479004119 NAD(P) binding site [chemical binding]; other site 548479004120 active site 548479004121 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 548479004122 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 548479004123 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 548479004124 DNA methylase; Region: N6_N4_Mtase; pfam01555 548479004125 Methyltransferase domain; Region: Methyltransf_26; pfam13659 548479004126 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 548479004127 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 548479004128 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 548479004129 Walker A/P-loop; other site 548479004130 ATP binding site [chemical binding]; other site 548479004131 Q-loop/lid; other site 548479004132 ABC transporter signature motif; other site 548479004133 Walker B; other site 548479004134 D-loop; other site 548479004135 H-loop/switch region; other site 548479004136 TOBE domain; Region: TOBE; cl01440 548479004137 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 548479004138 dimer interface [polypeptide binding]; other site 548479004139 conserved gate region; other site 548479004140 putative PBP binding loops; other site 548479004141 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 548479004142 ABC-ATPase subunit interface; other site 548479004143 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 548479004144 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 548479004145 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 548479004146 DNA binding residues [nucleotide binding] 548479004147 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 548479004148 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 548479004149 FeS/SAM binding site; other site 548479004150 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 548479004151 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 548479004152 MoaE homodimer interface [polypeptide binding]; other site 548479004153 MoaD interaction [polypeptide binding]; other site 548479004154 active site residues [active] 548479004155 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 548479004156 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 548479004157 ATP binding site [chemical binding]; other site 548479004158 substrate interface [chemical binding]; other site 548479004159 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 548479004160 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 548479004161 dimer interface [polypeptide binding]; other site 548479004162 putative functional site; other site 548479004163 putative MPT binding site; other site 548479004164 Sec-independent protein translocase protein (TatC); Region: TatC; pfam00902 548479004165 twin arginine-targeting protein translocase, TatA/E family; Region: tatAE; TIGR01411 548479004166 molybdenum cofactor biosynthesis protein MoaC; Provisional; Region: moaC; PRK09364 548479004167 trimer interface [polypeptide binding]; other site 548479004168 dimer interface [polypeptide binding]; other site 548479004169 putative active site [active] 548479004170 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 548479004171 MPT binding site; other site 548479004172 trimer interface [polypeptide binding]; other site 548479004173 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 548479004174 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 548479004175 substrate binding pocket [chemical binding]; other site 548479004176 membrane-bound complex binding site; other site 548479004177 hinge residues; other site 548479004178 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 548479004179 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 548479004180 substrate binding pocket [chemical binding]; other site 548479004181 membrane-bound complex binding site; other site 548479004182 hinge residues; other site 548479004183 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 548479004184 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 548479004185 dimer interface [polypeptide binding]; other site 548479004186 putative CheW interface [polypeptide binding]; other site 548479004187 Predicted permease [General function prediction only]; Region: COG2985 548479004188 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 548479004189 TrkA-C domain; Region: TrkA_C; pfam02080 548479004190 TrkA-C domain; Region: TrkA_C; pfam02080 548479004191 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 548479004192 Uncharacterized conserved protein [Function unknown]; Region: COG2966 548479004193 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 548479004194 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 548479004195 acetolactate synthase 1 catalytic subunit; Validated; Region: PRK07789 548479004196 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 548479004197 PYR/PP interface [polypeptide binding]; other site 548479004198 dimer interface [polypeptide binding]; other site 548479004199 TPP binding site [chemical binding]; other site 548479004200 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 548479004201 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 548479004202 TPP-binding site [chemical binding]; other site 548479004203 dimer interface [polypeptide binding]; other site 548479004204 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 548479004205 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 548479004206 putative valine binding site [chemical binding]; other site 548479004207 dimer interface [polypeptide binding]; other site 548479004208 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 548479004209 ketol-acid reductoisomerase; Provisional; Region: PRK05479 548479004210 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 548479004211 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 548479004212 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 548479004213 EamA-like transporter family; Region: EamA; pfam00892 548479004214 EamA-like transporter family; Region: EamA; pfam00892 548479004215 tartrate dehydrogenase; Region: TTC; TIGR02089 548479004216 3-isopropylmalate dehydrogenase; Provisional; Region: PRK03437 548479004217 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 548479004218 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 548479004219 homodimer interface [polypeptide binding]; other site 548479004220 substrate-cofactor binding pocket; other site 548479004221 catalytic residue [active] 548479004222 Tic20-like protein; Region: Tic20; pfam09685 548479004223 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 548479004224 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 548479004225 active site 548479004226 catalytic triad [active] 548479004227 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 548479004228 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 548479004229 active site 548479004230 catalytic residues [active] 548479004231 metal binding site [ion binding]; metal-binding site 548479004232 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 548479004233 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 548479004234 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 548479004235 dimer interface [polypeptide binding]; other site 548479004236 putative CheW interface [polypeptide binding]; other site 548479004237 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 548479004238 HAMP domain; Region: HAMP; pfam00672 548479004239 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 548479004240 dimer interface [polypeptide binding]; other site 548479004241 putative CheW interface [polypeptide binding]; other site 548479004242 Protein of unknown function (DUF4237); Region: DUF4237; pfam14021 548479004243 2-isopropylmalate synthase; Validated; Region: PRK03739 548479004244 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 548479004245 active site 548479004246 catalytic residues [active] 548479004247 metal binding site [ion binding]; metal-binding site 548479004248 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 548479004249 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 548479004250 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 548479004251 dimer interface [polypeptide binding]; other site 548479004252 putative CheW interface [polypeptide binding]; other site 548479004253 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 548479004254 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 548479004255 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 548479004256 dimer interface [polypeptide binding]; other site 548479004257 putative CheW interface [polypeptide binding]; other site 548479004258 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 548479004259 Recombination protein O N terminal; Region: RecO_N; pfam11967 548479004260 Recombination protein O C terminal; Region: RecO_C; pfam02565 548479004261 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 548479004262 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 548479004263 catalytic residue [active] 548479004264 putative FPP diphosphate binding site; other site 548479004265 putative FPP binding hydrophobic cleft; other site 548479004266 dimer interface [polypeptide binding]; other site 548479004267 putative IPP diphosphate binding site; other site 548479004268 succinic semialdehyde dehydrogenase; Region: PLN02278 548479004269 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 548479004270 tetramerization interface [polypeptide binding]; other site 548479004271 NAD(P) binding site [chemical binding]; other site 548479004272 catalytic residues [active] 548479004273 serine O-acetyltransferase; Region: cysE; TIGR01172 548479004274 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 548479004275 trimer interface [polypeptide binding]; other site 548479004276 active site 548479004277 substrate binding site [chemical binding]; other site 548479004278 CoA binding site [chemical binding]; other site 548479004279 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 548479004280 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 548479004281 dimer interface [polypeptide binding]; other site 548479004282 pyridoxal 5'-phosphate binding site [chemical binding]; other site 548479004283 catalytic residue [active] 548479004284 uncharacterized protein, YigZ family; Region: IMPACT_YIGZ; TIGR00257 548479004285 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 548479004286 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 548479004287 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 548479004288 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 548479004289 motif II; other site 548479004290 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 548479004291 DNA methylase; Region: N6_N4_Mtase; pfam01555 548479004292 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 548479004293 Peptidase family U32; Region: Peptidase_U32; pfam01136 548479004294 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 548479004295 Coenzyme A binding pocket [chemical binding]; other site 548479004296 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 548479004297 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 548479004298 putative substrate binding site [chemical binding]; other site 548479004299 putative ATP binding site [chemical binding]; other site 548479004300 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 548479004301 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 548479004302 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 548479004303 Walker A/P-loop; other site 548479004304 ATP binding site [chemical binding]; other site 548479004305 Q-loop/lid; other site 548479004306 ABC transporter signature motif; other site 548479004307 Walker B; other site 548479004308 D-loop; other site 548479004309 H-loop/switch region; other site 548479004310 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 548479004311 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 548479004312 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 548479004313 Walker A/P-loop; other site 548479004314 ATP binding site [chemical binding]; other site 548479004315 Q-loop/lid; other site 548479004316 ABC transporter signature motif; other site 548479004317 Walker B; other site 548479004318 D-loop; other site 548479004319 H-loop/switch region; other site 548479004320 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 548479004321 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 548479004322 Walker A/P-loop; other site 548479004323 ATP binding site [chemical binding]; other site 548479004324 Q-loop/lid; other site 548479004325 ABC transporter signature motif; other site 548479004326 Walker B; other site 548479004327 D-loop; other site 548479004328 H-loop/switch region; other site 548479004329 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 548479004330 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 548479004331 Walker A/P-loop; other site 548479004332 ATP binding site [chemical binding]; other site 548479004333 Q-loop/lid; other site 548479004334 ABC transporter signature motif; other site 548479004335 Walker B; other site 548479004336 D-loop; other site 548479004337 H-loop/switch region; other site 548479004338 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 548479004339 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; cl01943 548479004340 Integrase core domain; Region: rve_3; pfam13683 548479004341 HTH-like domain; Region: HTH_21; pfam13276 548479004342 carnitinyl-CoA dehydratase; Provisional; Region: PRK03580 548479004343 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 548479004344 active site 548479004345 Protein of unknown function (DUF418); Region: DUF418; cl12135 548479004346 Integrase core domain; Region: rve_3; pfam13683 548479004347 HTH-like domain; Region: HTH_21; pfam13276 548479004348 Integrase core domain; Region: rve; pfam00665 548479004349 carnitinyl-CoA dehydratase; Provisional; Region: PRK03580 548479004350 MULE transposase domain; Region: MULE; pfam10551 548479004351 diacylglycerol kinase; Reviewed; Region: PRK11914 548479004352 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 548479004353 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 548479004354 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 548479004355 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 548479004356 putative active site [active] 548479004357 putative substrate binding site [chemical binding]; other site 548479004358 putative cosubstrate binding site; other site 548479004359 catalytic site [active] 548479004360 tRNA threonylcarbamoyl adenosine modification protein YgjD; Region: T6A_YgjD; TIGR03723 548479004361 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 548479004362 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 548479004363 oligomerisation interface [polypeptide binding]; other site 548479004364 mobile loop; other site 548479004365 roof hairpin; other site 548479004366 potential frameshift: common BLAST hit: gi|258651135|ref|YP_003200291.1| Integrase catalytic region 548479004367 Integrase core domain; Region: rve; pfam00665 548479004368 Amidinotransferase; Region: Amidinotransf; cl12043 548479004369 Transcription factor WhiB; Region: Whib; pfam02467 548479004370 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 548479004371 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 548479004372 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 548479004373 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 548479004374 active site 548479004375 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 548479004376 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 548479004377 active site 548479004378 catalytic site [active] 548479004379 substrate binding site [chemical binding]; other site 548479004380 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 548479004381 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 548479004382 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 548479004383 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK08649 548479004384 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 548479004385 active site 548479004386 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 548479004387 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 548479004388 Walker A/P-loop; other site 548479004389 ATP binding site [chemical binding]; other site 548479004390 Q-loop/lid; other site 548479004391 ABC transporter signature motif; other site 548479004392 Walker B; other site 548479004393 D-loop; other site 548479004394 H-loop/switch region; other site 548479004395 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 548479004396 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 548479004397 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 548479004398 Walker A/P-loop; other site 548479004399 ATP binding site [chemical binding]; other site 548479004400 Q-loop/lid; other site 548479004401 ABC transporter signature motif; other site 548479004402 Walker B; other site 548479004403 D-loop; other site 548479004404 H-loop/switch region; other site 548479004405 Protein of unknown function (DUF419); Region: DUF419; cl15265 548479004406 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 548479004407 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 548479004408 non-specific DNA binding site [nucleotide binding]; other site 548479004409 salt bridge; other site 548479004410 sequence-specific DNA binding site [nucleotide binding]; other site 548479004411 Isoleucyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: IleS; COG0060 548479004412 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 548479004413 HIGH motif; other site 548479004414 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 548479004415 active site 548479004416 KMSKS motif; other site 548479004417 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 548479004418 tRNA binding surface [nucleotide binding]; other site 548479004419 anticodon binding site; other site 548479004420 AAA domain; Region: AAA_33; pfam13671 548479004421 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 548479004422 active site 548479004423 metal binding site [ion binding]; metal-binding site 548479004424 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 548479004425 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 548479004426 active site 548479004427 catalytic tetrad [active] 548479004428 Major Facilitator Superfamily; Region: MFS_1; pfam07690 548479004429 GPH family sucrose/H+ symporter; Region: GPH_sucrose; TIGR01301 548479004430 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 548479004431 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 548479004432 23S rRNA methyluridine methyltransferase; Reviewed; Region: rumB; PRK03522 548479004433 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 548479004434 S-adenosylmethionine binding site [chemical binding]; other site 548479004435 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 548479004436 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 548479004437 metal binding site 2 [ion binding]; metal-binding site 548479004438 putative DNA binding helix; other site 548479004439 metal binding site 1 [ion binding]; metal-binding site 548479004440 dimer interface [polypeptide binding]; other site 548479004441 structural Zn2+ binding site [ion binding]; other site 548479004442 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 548479004443 intersubunit interface [polypeptide binding]; other site 548479004444 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 548479004445 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 548479004446 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 548479004447 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 548479004448 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 548479004449 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 548479004450 ABC-ATPase subunit interface; other site 548479004451 dimer interface [polypeptide binding]; other site 548479004452 putative PBP binding regions; other site 548479004453 recombinase A; Provisional; Region: recA; PRK09354 548479004454 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 548479004455 hexamer interface [polypeptide binding]; other site 548479004456 Walker A motif; other site 548479004457 ATP binding site [chemical binding]; other site 548479004458 Walker B motif; other site 548479004459 recombination regulator RecX; Reviewed; Region: recX; PRK00117 548479004460 Competence-damaged protein; Region: CinA; pfam02464 548479004461 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14326 548479004462 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 548479004463 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 548479004464 FeS/SAM binding site; other site 548479004465 TRAM domain; Region: TRAM; cl01282 548479004466 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 548479004467 IPP transferase; Region: IPPT; pfam01715 548479004468 Methyltransferase domain; Region: Methyltransf_31; pfam13847 548479004469 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 548479004470 S-adenosylmethionine binding site [chemical binding]; other site 548479004471 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14951 548479004472 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 548479004473 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 548479004474 HflX GTPase family; Region: HflX; cd01878 548479004475 G1 box; other site 548479004476 GTP/Mg2+ binding site [chemical binding]; other site 548479004477 Switch I region; other site 548479004478 G2 box; other site 548479004479 G3 box; other site 548479004480 Switch II region; other site 548479004481 G4 box; other site 548479004482 G5 box; other site 548479004483 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 548479004484 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 548479004485 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 548479004486 LexA repressor; Validated; Region: PRK00215 548479004487 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 548479004488 Catalytic site [active] 548479004489 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 548479004490 ATP cone domain; Region: ATP-cone; pfam03477 548479004491 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05605 548479004492 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 548479004493 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 548479004494 acyl-activating enzyme (AAE) consensus motif; other site 548479004495 AMP binding site [chemical binding]; other site 548479004496 active site 548479004497 CoA binding site [chemical binding]; other site 548479004498 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 548479004499 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 548479004500 ligand binding site [chemical binding]; other site 548479004501 NAD binding site [chemical binding]; other site 548479004502 tetramer interface [polypeptide binding]; other site 548479004503 catalytic site [active] 548479004504 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 548479004505 L-serine binding site [chemical binding]; other site 548479004506 ACT domain interface; other site 548479004507 Part of AAA domain; Region: AAA_19; pfam13245 548479004508 Family description; Region: UvrD_C_2; pfam13538 548479004509 PAC2 family; Region: PAC2; pfam09754 548479004510 Protein of unknown function (DUF3040); Region: DUF3040; pfam11239 548479004511 cell division protein MraZ; Reviewed; Region: PRK00326 548479004512 MraZ protein; Region: MraZ; pfam02381 548479004513 MraZ protein; Region: MraZ; pfam02381 548479004514 MraW methylase family; Region: Methyltransf_5; cl17771 548479004515 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 548479004516 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 548479004517 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 548479004518 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 548479004519 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 548479004520 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 548479004521 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 548479004522 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 548479004523 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 548479004524 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 548479004525 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 548479004526 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 548479004527 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 548479004528 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 548479004529 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 548479004530 Mg++ binding site [ion binding]; other site 548479004531 putative catalytic motif [active] 548479004532 putative substrate binding site [chemical binding]; other site 548479004533 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01438 548479004534 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 548479004535 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 548479004536 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 548479004537 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 548479004538 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 548479004539 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 548479004540 active site 548479004541 homodimer interface [polypeptide binding]; other site 548479004542 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 548479004543 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 548479004544 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 548479004545 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 548479004546 Cell division protein FtsQ; Region: FtsQ; pfam03799 548479004547 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 548479004548 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 548479004549 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00844 548479004550 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 548479004551 ligand binding site; other site 548479004552 oligomer interface; other site 548479004553 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 548479004554 dimer interface [polypeptide binding]; other site 548479004555 N-terminal domain interface [polypeptide binding]; other site 548479004556 sulfate 1 binding site; other site 548479004557 glycogen synthase, Corynebacterium family; Region: glgA_Coryne; TIGR02149 548479004558 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 548479004559 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 548479004560 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 548479004561 Walker A/P-loop; other site 548479004562 ATP binding site [chemical binding]; other site 548479004563 Q-loop/lid; other site 548479004564 ABC transporter signature motif; other site 548479004565 Walker B; other site 548479004566 D-loop; other site 548479004567 H-loop/switch region; other site 548479004568 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 548479004569 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 548479004570 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 548479004571 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14109 548479004572 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 548479004573 metal binding triad; other site 548479004574 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 548479004575 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 548479004576 metal binding triad; other site 548479004577 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 548479004578 xylose isomerase; Provisional; Region: PRK12677 548479004579 xylose isomerase, Arthrobacter type; Region: xylA_Arthro; TIGR02631 548479004580 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 548479004581 D-xylulose kinase; Region: XylB; TIGR01312 548479004582 nucleotide binding site [chemical binding]; other site 548479004583 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 548479004584 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 548479004585 nucleotide binding site [chemical binding]; other site 548479004586 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 548479004587 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 548479004588 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 548479004589 dimer interface [polypeptide binding]; other site 548479004590 conserved gate region; other site 548479004591 putative PBP binding loops; other site 548479004592 ABC-ATPase subunit interface; other site 548479004593 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 548479004594 dimer interface [polypeptide binding]; other site 548479004595 conserved gate region; other site 548479004596 putative PBP binding loops; other site 548479004597 ABC-ATPase subunit interface; other site 548479004598 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 548479004599 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 548479004600 putative alpha-glucosidase; Provisional; Region: PRK10658 548479004601 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 548479004602 YicI alpha-xylosidase is a glycosyl hydrolase family 31 (GH31) enzyme that catalyzes the release of an alpha-xylosyl residue from the non-reducing end of alpha-xyloside substrates such as alpha-xylosyl fluoride and isoprimeverose. YicI forms a...; Region: GH31_xylosidase_YicI; cd06593 548479004603 active site 548479004604 homotrimer interface [polypeptide binding]; other site 548479004605 catalytic site [active] 548479004606 homohexamer (dimer of homotrimers) interface [polypeptide binding]; other site 548479004607 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 548479004608 catalytic core [active] 548479004609 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 548479004610 active site 548479004611 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 548479004612 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 548479004613 Walker A/P-loop; other site 548479004614 ATP binding site [chemical binding]; other site 548479004615 Q-loop/lid; other site 548479004616 ABC transporter signature motif; other site 548479004617 Walker B; other site 548479004618 D-loop; other site 548479004619 H-loop/switch region; other site 548479004620 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 548479004621 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 548479004622 dimer interface [polypeptide binding]; other site 548479004623 conserved gate region; other site 548479004624 putative PBP binding loops; other site 548479004625 ABC-ATPase subunit interface; other site 548479004626 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 548479004627 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 548479004628 substrate binding pocket [chemical binding]; other site 548479004629 membrane-bound complex binding site; other site 548479004630 hinge residues; other site 548479004631 Domain of unknown function (DUF4191); Region: DUF4191; pfam13829 548479004632 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 548479004633 active site 548479004634 ATP binding site [chemical binding]; other site 548479004635 substrate binding site [chemical binding]; other site 548479004636 activation loop (A-loop); other site 548479004637 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 548479004638 E3 interaction surface; other site 548479004639 lipoyl attachment site [posttranslational modification]; other site 548479004640 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 548479004641 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 548479004642 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 548479004643 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 548479004644 multifunctional aminopeptidase A; Provisional; Region: PRK00913 548479004645 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 548479004646 interface (dimer of trimers) [polypeptide binding]; other site 548479004647 Substrate-binding/catalytic site; other site 548479004648 Zn-binding sites [ion binding]; other site 548479004649 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 548479004650 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 548479004651 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 548479004652 Phosphoglycerate kinase; Region: PGK; pfam00162 548479004653 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 548479004654 substrate binding site [chemical binding]; other site 548479004655 hinge regions; other site 548479004656 ADP binding site [chemical binding]; other site 548479004657 catalytic site [active] 548479004658 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 548479004659 triosephosphate isomerase; Provisional; Region: PRK14567 548479004660 substrate binding site [chemical binding]; other site 548479004661 dimer interface [polypeptide binding]; other site 548479004662 catalytic triad [active] 548479004663 CrcB-like protein; Region: CRCB; pfam02537 548479004664 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 548479004665 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 548479004666 TPP-binding site [chemical binding]; other site 548479004667 dimer interface [polypeptide binding]; other site 548479004668 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 548479004669 PYR/PP interface [polypeptide binding]; other site 548479004670 dimer interface [polypeptide binding]; other site 548479004671 TPP binding site [chemical binding]; other site 548479004672 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 548479004673 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 548479004674 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 548479004675 active site 548479004676 DNA binding site [nucleotide binding] 548479004677 Int/Topo IB signature motif; other site 548479004678 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 548479004679 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479004680 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479004681 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479004682 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 548479004683 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 548479004684 P-loop; other site 548479004685 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 548479004686 Magnesium ion binding site [ion binding]; other site 548479004687 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 548479004688 Magnesium ion binding site [ion binding]; other site 548479004689 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 548479004690 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 548479004691 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 548479004692 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 548479004693 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 548479004694 RNA binding surface [nucleotide binding]; other site 548479004695 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 548479004696 active site 548479004697 prephenate dehydrogenase; Validated; Region: PRK06545 548479004698 prephenate dehydrogenase; Validated; Region: PRK08507 548479004699 cytidylate kinase; Provisional; Region: cmk; PRK00023 548479004700 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 548479004701 CMP-binding site; other site 548479004702 The sites determining sugar specificity; other site 548479004703 GTP-binding protein Der; Reviewed; Region: PRK03003 548479004704 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 548479004705 G1 box; other site 548479004706 GTP/Mg2+ binding site [chemical binding]; other site 548479004707 Switch I region; other site 548479004708 G2 box; other site 548479004709 Switch II region; other site 548479004710 G3 box; other site 548479004711 G4 box; other site 548479004712 G5 box; other site 548479004713 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 548479004714 G1 box; other site 548479004715 GTP/Mg2+ binding site [chemical binding]; other site 548479004716 Switch I region; other site 548479004717 G2 box; other site 548479004718 G3 box; other site 548479004719 Switch II region; other site 548479004720 G4 box; other site 548479004721 G5 box; other site 548479004722 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 548479004723 dimerization interface [polypeptide binding]; other site 548479004724 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 548479004725 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 548479004726 dimer interface [polypeptide binding]; other site 548479004727 putative CheW interface [polypeptide binding]; other site 548479004728 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 548479004729 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 548479004730 dimer interface [polypeptide binding]; other site 548479004731 putative CheW interface [polypeptide binding]; other site 548479004732 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 548479004733 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 548479004734 acyl-activating enzyme (AAE) consensus motif; other site 548479004735 putative AMP binding site [chemical binding]; other site 548479004736 putative active site [active] 548479004737 putative CoA binding site [chemical binding]; other site 548479004738 glutamine synthetase, type I; Region: GlnA; TIGR00653 548479004739 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 548479004740 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 548479004741 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 548479004742 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 548479004743 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 548479004744 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 548479004745 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 548479004746 dimer interface [polypeptide binding]; other site 548479004747 conserved gate region; other site 548479004748 putative PBP binding loops; other site 548479004749 ABC-ATPase subunit interface; other site 548479004750 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 548479004751 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 548479004752 Walker A/P-loop; other site 548479004753 ATP binding site [chemical binding]; other site 548479004754 Q-loop/lid; other site 548479004755 ABC transporter signature motif; other site 548479004756 Walker B; other site 548479004757 D-loop; other site 548479004758 H-loop/switch region; other site 548479004759 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 548479004760 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 548479004761 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 548479004762 DNA methylase; Region: N6_N4_Mtase; pfam01555 548479004763 DpnII restriction endonuclease; Region: DpnII; pfam04556 548479004764 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 548479004765 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 548479004766 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 548479004767 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 548479004768 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 548479004769 ATP binding site [chemical binding]; other site 548479004770 putative Mg++ binding site [ion binding]; other site 548479004771 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 548479004772 nucleotide binding region [chemical binding]; other site 548479004773 ATP-binding site [chemical binding]; other site 548479004774 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 548479004775 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 548479004776 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Deinococcus radiodurans DR2231 protein and its bacterial homologs; Region: NTP-PPase_DR2231_like; cd11530 548479004777 metal binding site [ion binding]; metal-binding site 548479004778 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 548479004779 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 548479004780 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 548479004781 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 548479004782 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 548479004783 active site 548479004784 catalytic tetrad [active] 548479004785 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 548479004786 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]; Region: GCD14; COG2519 548479004787 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 548479004788 S-adenosylmethionine binding site [chemical binding]; other site 548479004789 proteasome ATPase; Region: pup_AAA; TIGR03689 548479004790 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 548479004791 Walker A motif; other site 548479004792 ATP binding site [chemical binding]; other site 548479004793 Walker B motif; other site 548479004794 arginine finger; other site 548479004795 Pup-ligase protein; Region: Pup_ligase; pfam03136 548479004796 Pup-ligase protein; Region: Pup_ligase; cl15463 548479004797 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 548479004798 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 548479004799 substrate binding site [chemical binding]; other site 548479004800 glutamase interaction surface [polypeptide binding]; other site 548479004801 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 548479004802 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 548479004803 active site 548479004804 ribulose/triose binding site [chemical binding]; other site 548479004805 phosphate binding site [ion binding]; other site 548479004806 substrate (anthranilate) binding pocket [chemical binding]; other site 548479004807 product (indole) binding pocket [chemical binding]; other site 548479004808 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 548479004809 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 548479004810 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 548479004811 Catalytic site [active] 548479004812 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 548479004813 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 548479004814 active site 548479004815 DNA binding site [nucleotide binding] 548479004816 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 548479004817 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 548479004818 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 548479004819 NAD binding site [chemical binding]; other site 548479004820 catalytic Zn binding site [ion binding]; other site 548479004821 substrate binding site [chemical binding]; other site 548479004822 structural Zn binding site [ion binding]; other site 548479004823 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4868 548479004824 hypothetical protein; Provisional; Region: PRK13663 548479004825 Domain of unknown function (DUF4032); Region: DUF4032; pfam13224 548479004826 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 548479004827 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 548479004828 active site 548479004829 phosphorylation site [posttranslational modification] 548479004830 intermolecular recognition site; other site 548479004831 dimerization interface [polypeptide binding]; other site 548479004832 ANTAR (AmiR and NasR transcription antitermination regulators) is an RNA-binding domain found in bacterial transcription antitermination regulatory proteins; Region: ANTAR; smart01012 548479004833 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 548479004834 CoenzymeA binding site [chemical binding]; other site 548479004835 subunit interaction site [polypeptide binding]; other site 548479004836 PHB binding site; other site 548479004837 DNA polymerase I; Provisional; Region: PRK05755 548479004838 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 548479004839 active site 548479004840 metal binding site 1 [ion binding]; metal-binding site 548479004841 putative 5' ssDNA interaction site; other site 548479004842 metal binding site 3; metal-binding site 548479004843 metal binding site 2 [ion binding]; metal-binding site 548479004844 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 548479004845 putative DNA binding site [nucleotide binding]; other site 548479004846 putative metal binding site [ion binding]; other site 548479004847 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 548479004848 active site 548479004849 substrate binding site [chemical binding]; other site 548479004850 catalytic site [active] 548479004851 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 548479004852 active site 548479004853 DNA binding site [nucleotide binding] 548479004854 catalytic site [active] 548479004855 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 548479004856 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 548479004857 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK07899 548479004858 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 548479004859 RNA binding site [nucleotide binding]; other site 548479004860 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 548479004861 RNA binding site [nucleotide binding]; other site 548479004862 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 548479004863 RNA binding site [nucleotide binding]; other site 548479004864 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 548479004865 RNA binding site [nucleotide binding]; other site 548479004866 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 548479004867 dephospho-CoA kinase; Region: TIGR00152 548479004868 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 548479004869 CoA-binding site [chemical binding]; other site 548479004870 excinuclease ABC subunit B; Provisional; Region: PRK05298 548479004871 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 548479004872 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 548479004873 nucleotide binding region [chemical binding]; other site 548479004874 ATP-binding site [chemical binding]; other site 548479004875 Ultra-violet resistance protein B; Region: UvrB; pfam12344 548479004876 UvrB/uvrC motif; Region: UVR; pfam02151 548479004877 Proline dehydrogenase; Region: Pro_dh; cl03282 548479004878 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 548479004879 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 548479004880 Glutamate binding site [chemical binding]; other site 548479004881 NAD binding site [chemical binding]; other site 548479004882 catalytic residues [active] 548479004883 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 548479004884 Na binding site [ion binding]; other site 548479004885 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 548479004886 Trypsin; Region: Trypsin; pfam00089 548479004887 active site 548479004888 substrate binding sites [chemical binding]; other site 548479004889 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479004890 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 548479004891 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 548479004892 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 548479004893 YCII-related domain; Region: YCII; cl00999 548479004894 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 548479004895 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 548479004896 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 548479004897 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 548479004898 methionine sulfoxide reductase B; Provisional; Region: PRK00222 548479004899 SelR domain; Region: SelR; pfam01641 548479004900 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 548479004901 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 548479004902 phosphopeptide binding site; other site 548479004903 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 548479004904 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 548479004905 DNA binding residues [nucleotide binding] 548479004906 dimer interface [polypeptide binding]; other site 548479004907 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 548479004908 DNA binding residues [nucleotide binding] 548479004909 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 548479004910 Domain of unknown function (DUF4109); Region: DUF4109; pfam13397 548479004911 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 548479004912 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 548479004913 Ligand binding site; other site 548479004914 Putative Catalytic site; other site 548479004915 DXD motif; other site 548479004916 Apolipoprotein N-acyltransferase [Cell envelope biogenesis, outer membrane]; Region: Lnt; COG0815 548479004917 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 548479004918 putative active site [active] 548479004919 catalytic triad [active] 548479004920 putative dimer interface [polypeptide binding]; other site 548479004921 DEAD-like helicases superfamily; Region: DEXDc; smart00487 548479004922 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 548479004923 ATP binding site [chemical binding]; other site 548479004924 putative Mg++ binding site [ion binding]; other site 548479004925 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 548479004926 nucleotide binding region [chemical binding]; other site 548479004927 ATP-binding site [chemical binding]; other site 548479004928 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; cl01201 548479004929 DSHCT (NUC185) domain; Region: DSHCT; pfam08148 548479004930 WYL domain; Region: WYL; pfam13280 548479004931 WYL domain; Region: WYL; pfam13280 548479004932 Protein of unknown function (DUF3866); Region: DUF3866; pfam12982 548479004933 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 548479004934 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 548479004935 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 548479004936 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Mycobacterium tuberculosis phosphoribosyl-ATP pyrophosphohydrolase (HisE or PRATP-PH) and its bacterial homologs; Region: NTP-PPase_HisE; cd11547 548479004937 homodimer interface [polypeptide binding]; other site 548479004938 putative metal binding site [ion binding]; other site 548479004939 NMT1/THI5 like; Region: NMT1; pfam09084 548479004940 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 548479004941 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 548479004942 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 548479004943 putative PBP binding loops; other site 548479004944 dimer interface [polypeptide binding]; other site 548479004945 ABC-ATPase subunit interface; other site 548479004946 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 548479004947 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 548479004948 substrate binding site [chemical binding]; other site 548479004949 hexamer interface [polypeptide binding]; other site 548479004950 metal binding site [ion binding]; metal-binding site 548479004951 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 548479004952 16S rRNA methyltransferase B; Provisional; Region: PRK14902 548479004953 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 548479004954 S-adenosylmethionine binding site [chemical binding]; other site 548479004955 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 548479004956 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 548479004957 putative active site [active] 548479004958 substrate binding site [chemical binding]; other site 548479004959 putative cosubstrate binding site; other site 548479004960 catalytic site [active] 548479004961 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 548479004962 substrate binding site [chemical binding]; other site 548479004963 primosome assembly protein PriA; Provisional; Region: PRK14873 548479004964 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 548479004965 S-adenosylmethionine synthetase; Validated; Region: PRK05250 548479004966 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 548479004967 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 548479004968 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 548479004969 phosphopantothenoylcysteine decarboxylase; Validated; Region: PRK07313 548479004970 Flavoprotein; Region: Flavoprotein; pfam02441 548479004971 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 548479004972 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 548479004973 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 548479004974 catalytic site [active] 548479004975 G-X2-G-X-G-K; other site 548479004976 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 548479004977 active site 548479004978 dimer interface [polypeptide binding]; other site 548479004979 dihydroorotase; Validated; Region: pyrC; PRK09357 548479004980 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 548479004981 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 548479004982 active site 548479004983 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 548479004984 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 548479004985 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 548479004986 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 548479004987 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 548479004988 active site 548479004989 transcription antitermination factor NusB; Region: nusB; TIGR01951 548479004990 elongation factor P; Validated; Region: PRK00529 548479004991 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 548479004992 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 548479004993 RNA binding site [nucleotide binding]; other site 548479004994 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 548479004995 RNA binding site [nucleotide binding]; other site 548479004996 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 548479004997 bifunctional shikimate kinase/3-dehydroquinate synthase; Provisional; Region: PRK14021 548479004998 ADP binding site [chemical binding]; other site 548479004999 magnesium binding site [ion binding]; other site 548479005000 putative shikimate binding site; other site 548479005001 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 548479005002 active site 548479005003 dimer interface [polypeptide binding]; other site 548479005004 metal binding site [ion binding]; metal-binding site 548479005005 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 548479005006 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 548479005007 Tetramer interface [polypeptide binding]; other site 548479005008 active site 548479005009 FMN-binding site [chemical binding]; other site 548479005010 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 548479005011 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 548479005012 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 548479005013 shikimate binding site; other site 548479005014 NAD(P) binding site [chemical binding]; other site 548479005015 proteins similar to Escherichia coli yceG; Region: yceG_like; cl17666 548479005016 YceG-like family; Region: YceG; pfam02618 548479005017 proteins similar to Escherichia coli yceG; Region: yceG_like; cl17666 548479005018 dimerization interface [polypeptide binding]; other site 548479005019 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 548479005020 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 548479005021 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 548479005022 motif 1; other site 548479005023 active site 548479005024 motif 2; other site 548479005025 motif 3; other site 548479005026 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 548479005027 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 548479005028 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 548479005029 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 548479005030 RNA binding surface [nucleotide binding]; other site 548479005031 recombination factor protein RarA; Reviewed; Region: PRK13342 548479005032 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 548479005033 Walker A motif; other site 548479005034 ATP binding site [chemical binding]; other site 548479005035 Walker B motif; other site 548479005036 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 548479005037 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 548479005038 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 548479005039 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 548479005040 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 548479005041 homodimer interface [polypeptide binding]; other site 548479005042 motif 1; other site 548479005043 active site 548479005044 motif 2; other site 548479005045 GAD domain; Region: GAD; pfam02938 548479005046 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 548479005047 active site 548479005048 motif 3; other site 548479005049 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 548479005050 Dynamin family; Region: Dynamin_N; pfam00350 548479005051 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 548479005052 G1 box; other site 548479005053 G1 box; other site 548479005054 GTP/Mg2+ binding site [chemical binding]; other site 548479005055 GTP/Mg2+ binding site [chemical binding]; other site 548479005056 G2 box; other site 548479005057 Switch I region; other site 548479005058 G3 box; other site 548479005059 Switch II region; other site 548479005060 Protein of unknown function, DUF258; Region: DUF258; pfam03193 548479005061 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 548479005062 G1 box; other site 548479005063 GTP/Mg2+ binding site [chemical binding]; other site 548479005064 G2 box; other site 548479005065 Switch I region; other site 548479005066 G3 box; other site 548479005067 Switch II region; other site 548479005068 G4 box; other site 548479005069 histidyl-tRNA synthetase; Region: hisS; TIGR00442 548479005070 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 548479005071 dimer interface [polypeptide binding]; other site 548479005072 motif 1; other site 548479005073 active site 548479005074 motif 2; other site 548479005075 motif 3; other site 548479005076 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 548479005077 anticodon binding site; other site 548479005078 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 548479005079 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 548479005080 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 548479005081 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 548479005082 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 548479005083 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 548479005084 Zn2+ binding site [ion binding]; other site 548479005085 Mg2+ binding site [ion binding]; other site 548479005086 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 548479005087 synthetase active site [active] 548479005088 NTP binding site [chemical binding]; other site 548479005089 metal binding site [ion binding]; metal-binding site 548479005090 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 548479005091 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 548479005092 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 548479005093 active site 548479005094 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 548479005095 Protein export membrane protein; Region: SecD_SecF; pfam02355 548479005096 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 548479005097 Protein export membrane protein; Region: SecD_SecF; cl14618 548479005098 Preprotein translocase subunit; Region: YajC; pfam02699 548479005099 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 548479005100 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 548479005101 Walker A motif; other site 548479005102 ATP binding site [chemical binding]; other site 548479005103 Walker B motif; other site 548479005104 arginine finger; other site 548479005105 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 548479005106 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 548479005107 RuvA N terminal domain; Region: RuvA_N; pfam01330 548479005108 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 548479005109 Holliday junction resolvase; Reviewed; Region: ruvC; PRK00039 548479005110 active site 548479005111 putative DNA-binding cleft [nucleotide binding]; other site 548479005112 dimer interface [polypeptide binding]; other site 548479005113 hypothetical protein; Validated; Region: PRK00110 548479005114 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 548479005115 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 548479005116 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 548479005117 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 548479005118 nudix motif; other site 548479005119 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 548479005120 predicted active site [active] 548479005121 catalytic triad [active] 548479005122 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 548479005123 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 548479005124 active site 548479005125 multimer interface [polypeptide binding]; other site 548479005126 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 548479005127 putative deacylase active site [active] 548479005128 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 548479005129 nucleotide binding site/active site [active] 548479005130 HIT family signature motif; other site 548479005131 catalytic residue [active] 548479005132 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 548479005133 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 548479005134 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 548479005135 Threonyl-tRNA synthetase (ThrRS) class II core catalytic domain. ThrRS is a homodimer. It is responsible for the attachment of threonine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ThrRS_core; cd00771 548479005136 active site 548479005137 dimer interface [polypeptide binding]; other site 548479005138 motif 1; other site 548479005139 motif 2; other site 548479005140 motif 3; other site 548479005141 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 548479005142 anticodon binding site; other site 548479005143 Transcriptional regulators [Transcription]; Region: PurR; COG1609 548479005144 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 548479005145 DNA binding site [nucleotide binding] 548479005146 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 548479005147 dimerization interface [polypeptide binding]; other site 548479005148 ligand binding site [chemical binding]; other site 548479005149 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 548479005150 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 548479005151 active site 548479005152 catalytic triad [active] 548479005153 oxyanion hole [active] 548479005154 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 548479005155 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 548479005156 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 548479005157 active site 548479005158 catalytic site [active] 548479005159 Protein of unknown function (DUF3000); Region: DUF3000; pfam11452 548479005160 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 548479005161 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 548479005162 catalytic site [active] 548479005163 putative active site [active] 548479005164 putative substrate binding site [chemical binding]; other site 548479005165 HRDC domain; Region: HRDC; pfam00570 548479005166 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 548479005167 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 548479005168 TPP-binding site; other site 548479005169 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 548479005170 PYR/PP interface [polypeptide binding]; other site 548479005171 dimer interface [polypeptide binding]; other site 548479005172 TPP binding site [chemical binding]; other site 548479005173 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 548479005174 aconitate hydratase; Validated; Region: PRK09277 548479005175 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 548479005176 substrate binding site [chemical binding]; other site 548479005177 ligand binding site [chemical binding]; other site 548479005178 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 548479005179 substrate binding site [chemical binding]; other site 548479005180 RelB antitoxin; Region: RelB; cl01171 548479005181 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 548479005182 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 548479005183 Integrase core domain; Region: rve; pfam00665 548479005184 Integrase core domain; Region: rve_3; cl15866 548479005185 transposase; Provisional; Region: PRK06526 548479005186 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 548479005187 Walker A motif; other site 548479005188 ATP binding site [chemical binding]; other site 548479005189 Walker B motif; other site 548479005190 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 548479005191 active site 548479005192 catalytic motif [active] 548479005193 Zn binding site [ion binding]; other site 548479005194 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 548479005195 Divergent AAA domain; Region: AAA_4; pfam04326 548479005196 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 548479005197 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 548479005198 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 548479005199 TrkA-N domain; Region: TrkA_N; pfam02254 548479005200 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 548479005201 TrkA-C domain; Region: TrkA_C; pfam02080 548479005202 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 548479005203 TrkA-N domain; Region: TrkA_N; pfam02254 548479005204 Protein of unknown function (DUF3159); Region: DUF3159; pfam11361 548479005205 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 548479005206 generic binding surface I; other site 548479005207 generic binding surface II; other site 548479005208 Protein of unknown function (DUF3710); Region: DUF3710; pfam12502 548479005209 Domain of unknown function (DUF4193); Region: DUF4193; pfam13834 548479005210 Protein of unknown function (DUF3071); Region: DUF3071; pfam11268 548479005211 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 548479005212 Phosphopentomutase [Carbohydrate transport and metabolism]; Region: DeoB; cl17415 548479005213 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 548479005214 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 548479005215 CAP-like domain; other site 548479005216 active site 548479005217 primary dimer interface [polypeptide binding]; other site 548479005218 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 548479005219 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 548479005220 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 548479005221 ATP binding site [chemical binding]; other site 548479005222 Mg2+ binding site [ion binding]; other site 548479005223 G-X-G motif; other site 548479005224 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 548479005225 anchoring element; other site 548479005226 dimer interface [polypeptide binding]; other site 548479005227 ATP binding site [chemical binding]; other site 548479005228 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 548479005229 active site 548479005230 metal binding site [ion binding]; metal-binding site 548479005231 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 548479005232 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 548479005233 Coenzyme A binding pocket [chemical binding]; other site 548479005234 RNA polymerase sigma factor SigB; Reviewed; Region: PRK07921 548479005235 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 548479005236 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 548479005237 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 548479005238 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 548479005239 DNA binding residues [nucleotide binding] 548479005240 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 548479005241 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 548479005242 substrate binding pocket [chemical binding]; other site 548479005243 chain length determination region; other site 548479005244 substrate-Mg2+ binding site; other site 548479005245 catalytic residues [active] 548479005246 aspartate-rich region 1; other site 548479005247 active site lid residues [active] 548479005248 aspartate-rich region 2; other site 548479005249 Helix-turn-helix domain; Region: HTH_17; pfam12728 548479005250 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 548479005251 Catalytic domain of Protein Kinases; Region: PKc; cd00180 548479005252 active site 548479005253 ATP binding site [chemical binding]; other site 548479005254 substrate binding site [chemical binding]; other site 548479005255 activation loop (A-loop); other site 548479005256 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 548479005257 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 548479005258 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 548479005259 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 548479005260 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 548479005261 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 548479005262 pyrophosphate--fructose-6-phosphate 1-phosphotransferase; Validated; Region: PRK06555 548479005263 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 548479005264 active site 548479005265 ADP/pyrophosphate binding site [chemical binding]; other site 548479005266 allosteric effector site; other site 548479005267 fructose-1,6-bisphosphate binding site; other site 548479005268 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 548479005269 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 548479005270 putative acyl-acceptor binding pocket; other site 548479005271 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 548479005272 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 548479005273 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 548479005274 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 548479005275 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 548479005276 hypothetical protein; Provisional; Region: PRK07907 548479005277 M20 Dipeptidases; Region: M20_Dipept_like; cd03893 548479005278 active site 548479005279 metal binding site [ion binding]; metal-binding site 548479005280 dimer interface [polypeptide binding]; other site 548479005281 Protein of unknown function (DUF3043); Region: DUF3043; pfam11241 548479005282 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 548479005283 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 548479005284 active site 548479005285 catalytic tetrad [active] 548479005286 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 548479005287 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 548479005288 quinone interaction residues [chemical binding]; other site 548479005289 active site 548479005290 catalytic residues [active] 548479005291 FMN binding site [chemical binding]; other site 548479005292 substrate binding site [chemical binding]; other site 548479005293 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 548479005294 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 548479005295 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 548479005296 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 548479005297 Eukaryotic phosphomannomutase; Region: PMM; cl17107 548479005298 Eukaryotic phosphomannomutase; Region: PMM; cl17107 548479005299 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 548479005300 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 548479005301 dimerization interface [polypeptide binding]; other site 548479005302 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 548479005303 dimer interface [polypeptide binding]; other site 548479005304 putative CheW interface [polypeptide binding]; other site 548479005305 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 548479005306 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 548479005307 dimerization interface [polypeptide binding]; other site 548479005308 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 548479005309 dimer interface [polypeptide binding]; other site 548479005310 putative CheW interface [polypeptide binding]; other site 548479005311 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 548479005312 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 548479005313 GIY-YIG motif/motif A; other site 548479005314 active site 548479005315 catalytic site [active] 548479005316 putative DNA binding site [nucleotide binding]; other site 548479005317 metal binding site [ion binding]; metal-binding site 548479005318 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 548479005319 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 548479005320 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 548479005321 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 548479005322 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 548479005323 phosphate binding site [ion binding]; other site 548479005324 putative substrate binding pocket [chemical binding]; other site 548479005325 dimer interface [polypeptide binding]; other site 548479005326 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 548479005327 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 548479005328 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 548479005329 ABC transporter; Region: ABC_tran_2; pfam12848 548479005330 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 548479005331 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 548479005332 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 548479005333 homodimer interface [polypeptide binding]; other site 548479005334 oligonucleotide binding site [chemical binding]; other site 548479005335 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 548479005336 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 548479005337 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 548479005338 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 548479005339 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 548479005340 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 548479005341 Walker A/P-loop; other site 548479005342 ATP binding site [chemical binding]; other site 548479005343 Q-loop/lid; other site 548479005344 ABC transporter signature motif; other site 548479005345 Walker B; other site 548479005346 D-loop; other site 548479005347 H-loop/switch region; other site 548479005348 thiol reductant ABC exporter, CydC subunit; Region: CydC; TIGR02868 548479005349 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 548479005350 Walker A/P-loop; other site 548479005351 ATP binding site [chemical binding]; other site 548479005352 Q-loop/lid; other site 548479005353 ABC transporter signature motif; other site 548479005354 Walker B; other site 548479005355 D-loop; other site 548479005356 H-loop/switch region; other site 548479005357 Histidine kinase; Region: HisKA_3; pfam07730 548479005358 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 548479005359 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 548479005360 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 548479005361 active site 548479005362 phosphorylation site [posttranslational modification] 548479005363 intermolecular recognition site; other site 548479005364 dimerization interface [polypeptide binding]; other site 548479005365 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 548479005366 DNA binding residues [nucleotide binding] 548479005367 dimerization interface [polypeptide binding]; other site 548479005368 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 548479005369 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 548479005370 DNA binding site [nucleotide binding] 548479005371 catalytic residue [active] 548479005372 H2TH interface [polypeptide binding]; other site 548479005373 putative catalytic residues [active] 548479005374 turnover-facilitating residue; other site 548479005375 intercalation triad [nucleotide binding]; other site 548479005376 8OG recognition residue [nucleotide binding]; other site 548479005377 putative reading head residues; other site 548479005378 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 548479005379 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 548479005380 ribonuclease III; Reviewed; Region: rnc; PRK00102 548479005381 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 548479005382 dimerization interface [polypeptide binding]; other site 548479005383 active site 548479005384 metal binding site [ion binding]; metal-binding site 548479005385 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 548479005386 dsRNA binding site [nucleotide binding]; other site 548479005387 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 548479005388 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 548479005389 active site 548479005390 KMSKS motif; other site 548479005391 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 548479005392 S-adenosylmethionine binding site [chemical binding]; other site 548479005393 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 548479005394 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 548479005395 ATP binding site [chemical binding]; other site 548479005396 putative Mg++ binding site [ion binding]; other site 548479005397 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 548479005398 nucleotide binding region [chemical binding]; other site 548479005399 ATP-binding site [chemical binding]; other site 548479005400 Predicted kinase related to dihydroxyacetone kinase [General function prediction only]; Region: COG1461 548479005401 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 548479005402 Aspartase; Region: Aspartase; cd01357 548479005403 active sites [active] 548479005404 tetramer interface [polypeptide binding]; other site 548479005405 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 548479005406 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 548479005407 dimer interface [polypeptide binding]; other site 548479005408 catalytic triad [active] 548479005409 peroxidatic and resolving cysteines [active] 548479005410 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 548479005411 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 548479005412 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 548479005413 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 548479005414 23S rRNA binding site [nucleotide binding]; other site 548479005415 L21 binding site [polypeptide binding]; other site 548479005416 L13 binding site [polypeptide binding]; other site 548479005417 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 548479005418 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 548479005419 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 548479005420 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 548479005421 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 548479005422 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 548479005423 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 548479005424 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 548479005425 catalytic residues [active] 548479005426 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 548479005427 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 548479005428 putative active site [active] 548479005429 oxyanion strand; other site 548479005430 catalytic triad [active] 548479005431 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 548479005432 putative active site pocket [active] 548479005433 4-fold oligomerization interface [polypeptide binding]; other site 548479005434 metal binding residues [ion binding]; metal-binding site 548479005435 3-fold/trimer interface [polypeptide binding]; other site 548479005436 histidinol-phosphate aminotransferase; Provisional; Region: PRK03317 548479005437 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 548479005438 pyridoxal 5'-phosphate binding site [chemical binding]; other site 548479005439 homodimer interface [polypeptide binding]; other site 548479005440 catalytic residue [active] 548479005441 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 548479005442 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 548479005443 NAD binding site [chemical binding]; other site 548479005444 dimerization interface [polypeptide binding]; other site 548479005445 product binding site; other site 548479005446 substrate binding site [chemical binding]; other site 548479005447 zinc binding site [ion binding]; other site 548479005448 catalytic residues [active] 548479005449 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 548479005450 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 548479005451 dimer interface [polypeptide binding]; other site 548479005452 conserved gate region; other site 548479005453 putative PBP binding loops; other site 548479005454 ABC-ATPase subunit interface; other site 548479005455 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 548479005456 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 548479005457 dimer interface [polypeptide binding]; other site 548479005458 conserved gate region; other site 548479005459 ABC-ATPase subunit interface; other site 548479005460 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 548479005461 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 548479005462 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 548479005463 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 548479005464 catalytic residue [active] 548479005465 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 548479005466 Transcriptional regulators [Transcription]; Region: FadR; COG2186 548479005467 DNA-binding site [nucleotide binding]; DNA binding site 548479005468 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 548479005469 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 548479005470 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 548479005471 active site 548479005472 PHP Thumb interface [polypeptide binding]; other site 548479005473 metal binding site [ion binding]; metal-binding site 548479005474 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 548479005475 generic binding surface II; other site 548479005476 generic binding surface I; other site 548479005477 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 548479005478 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 548479005479 active site 548479005480 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 548479005481 DivIVA protein; Region: DivIVA; pfam05103 548479005482 DivIVA domain; Region: DivI1A_domain; TIGR03544 548479005483 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 548479005484 Protein of unknown function (DUF552); Region: DUF552; pfam04472 548479005485 cell division protein FtsZ; Validated; Region: PRK09330 548479005486 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 548479005487 nucleotide binding site [chemical binding]; other site 548479005488 SulA interaction site; other site 548479005489 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 548479005490 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 548479005491 substrate binding pocket [chemical binding]; other site 548479005492 membrane-bound complex binding site; other site 548479005493 hinge residues; other site 548479005494 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 548479005495 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 548479005496 dimer interface [polypeptide binding]; other site 548479005497 conserved gate region; other site 548479005498 putative PBP binding loops; other site 548479005499 ABC-ATPase subunit interface; other site 548479005500 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 548479005501 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 548479005502 Walker A/P-loop; other site 548479005503 ATP binding site [chemical binding]; other site 548479005504 Q-loop/lid; other site 548479005505 ABC transporter signature motif; other site 548479005506 Walker B; other site 548479005507 D-loop; other site 548479005508 H-loop/switch region; other site 548479005509 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 548479005510 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 548479005511 Walker A/P-loop; other site 548479005512 ATP binding site [chemical binding]; other site 548479005513 Q-loop/lid; other site 548479005514 ABC transporter signature motif; other site 548479005515 Walker B; other site 548479005516 D-loop; other site 548479005517 H-loop/switch region; other site 548479005518 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 548479005519 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 548479005520 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 548479005521 phosphate binding site [ion binding]; other site 548479005522 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 548479005523 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 548479005524 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 548479005525 trimerization site [polypeptide binding]; other site 548479005526 active site 548479005527 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 548479005528 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 548479005529 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 548479005530 catalytic residue [active] 548479005531 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 548479005532 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 548479005533 Walker A/P-loop; other site 548479005534 ATP binding site [chemical binding]; other site 548479005535 Q-loop/lid; other site 548479005536 ABC transporter signature motif; other site 548479005537 Walker B; other site 548479005538 D-loop; other site 548479005539 H-loop/switch region; other site 548479005540 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 548479005541 [2Fe-2S] cluster binding site [ion binding]; other site 548479005542 FeS assembly protein SufD; Region: sufD; TIGR01981 548479005543 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 548479005544 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 548479005545 FeS assembly protein SufB; Region: sufB; TIGR01980 548479005546 Predicted transcriptional regulator [Transcription]; Region: COG2345 548479005547 putative DNA binding site [nucleotide binding]; other site 548479005548 Helix-turn-helix domain; Region: HTH_20; pfam12840 548479005549 putative Zn2+ binding site [ion binding]; other site 548479005550 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 548479005551 dimer interface [polypeptide binding]; other site 548479005552 ADP-ribose binding site [chemical binding]; other site 548479005553 active site 548479005554 nudix motif; other site 548479005555 metal binding site [ion binding]; metal-binding site 548479005556 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 548479005557 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 548479005558 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 548479005559 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 548479005560 Protein of unknown function (DUF3186); Region: DUF3186; pfam11382 548479005561 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4825 548479005562 Thiamine pyrophosphokinase; Region: TPK; cl08415 548479005563 Thiamine pyrophosphokinase C terminal; Region: TPPK_C; pfam12555 548479005564 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 548479005565 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 548479005566 Walker A/P-loop; other site 548479005567 ATP binding site [chemical binding]; other site 548479005568 Q-loop/lid; other site 548479005569 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 548479005570 ABC transporter signature motif; other site 548479005571 Walker B; other site 548479005572 D-loop; other site 548479005573 H-loop/switch region; other site 548479005574 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 548479005575 ATP-NAD kinase; Region: NAD_kinase; pfam01513 548479005576 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 548479005577 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 548479005578 RNA binding surface [nucleotide binding]; other site 548479005579 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 548479005580 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 548479005581 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 548479005582 active site 548479005583 motif I; other site 548479005584 motif II; other site 548479005585 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 548479005586 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 548479005587 RNA/DNA hybrid binding site [nucleotide binding]; other site 548479005588 active site 548479005589 Acetyl esterase (deacetylase) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3458 548479005590 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 548479005591 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 548479005592 putative substrate binding site [chemical binding]; other site 548479005593 nucleotide binding site [chemical binding]; other site 548479005594 nucleotide binding site [chemical binding]; other site 548479005595 homodimer interface [polypeptide binding]; other site 548479005596 ornithine carbamoyltransferase; Validated; Region: PRK02102 548479005597 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 548479005598 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 548479005599 arginine deiminase; Provisional; Region: PRK01388 548479005600 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 548479005601 HTH-like domain; Region: HTH_21; pfam13276 548479005602 Integrase core domain; Region: rve; pfam00665 548479005603 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 548479005604 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 548479005605 metal binding site [ion binding]; metal-binding site 548479005606 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863