-- dump date 20140619_235328 -- class Genbank::misc_feature -- table misc_feature_note -- id note 242619000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 242619000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 242619000003 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 242619000004 Walker A motif; other site 242619000005 ATP binding site [chemical binding]; other site 242619000006 Walker B motif; other site 242619000007 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 242619000008 DnaA box-binding interface [nucleotide binding]; other site 242619000009 putative trimer interface [polypeptide binding]; other site 242619000010 Bacterial transferase hexapeptide (six repeats); Region: Hexapep; pfam00132 242619000011 putative CoA binding site [chemical binding]; other site 242619000012 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 242619000013 putative trimer interface [polypeptide binding]; other site 242619000014 putative active site [active] 242619000015 putative substrate binding site [chemical binding]; other site 242619000016 putative CoA binding site [chemical binding]; other site 242619000017 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 242619000018 Acyltransferase family; Region: Acyl_transf_3; pfam01757 242619000019 NAD-dependent deacetylase; Provisional; Region: PRK00481 242619000020 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 242619000021 NAD+ binding site [chemical binding]; other site 242619000022 substrate binding site [chemical binding]; other site 242619000023 Zn binding site [ion binding]; other site 242619000024 phosphodiesterase YaeI; Provisional; Region: PRK11340 242619000025 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 242619000026 putative active site [active] 242619000027 putative metal binding site [ion binding]; other site 242619000028 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 242619000029 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 242619000030 putative transposase OrfB; Reviewed; Region: PHA02517 242619000031 Integrase core domain; Region: rve; pfam00665 242619000032 Integrase core domain; Region: rve_3; pfam13683 242619000033 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 242619000034 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 242619000035 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 242619000036 Walker A motif; other site 242619000037 ATP binding site [chemical binding]; other site 242619000038 Walker B motif; other site 242619000039 arginine finger; other site 242619000040 UvrB/uvrC motif; Region: UVR; pfam02151 242619000041 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 242619000042 Walker A motif; other site 242619000043 ATP binding site [chemical binding]; other site 242619000044 Walker B motif; other site 242619000045 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 242619000046 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 242619000047 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 242619000048 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 242619000049 Beta-lactamase; Region: Beta-lactamase; pfam00144 242619000050 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 242619000051 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 242619000052 pyridoxal 5'-phosphate binding site [chemical binding]; other site 242619000053 homodimer interface [polypeptide binding]; other site 242619000054 catalytic residue [active] 242619000055 2-phosphosulpholactate phosphatase; Region: 2-ph_phosp; pfam04029 242619000056 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 242619000057 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 242619000058 active site 242619000059 phosphorylation site [posttranslational modification] 242619000060 intermolecular recognition site; other site 242619000061 dimerization interface [polypeptide binding]; other site 242619000062 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 242619000063 Walker A motif; other site 242619000064 ATP binding site [chemical binding]; other site 242619000065 Walker B motif; other site 242619000066 arginine finger; other site 242619000067 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 242619000068 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 242619000069 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 242619000070 ATP binding site [chemical binding]; other site 242619000071 Mg2+ binding site [ion binding]; other site 242619000072 G-X-G motif; other site 242619000073 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 242619000074 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 242619000075 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 242619000076 Transcriptional regulators [Transcription]; Region: MarR; COG1846 242619000077 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 242619000078 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 242619000079 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 242619000080 FMN binding site [chemical binding]; other site 242619000081 active site 242619000082 catalytic residues [active] 242619000083 substrate binding site [chemical binding]; other site 242619000084 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 242619000085 putative transporter; Provisional; Region: PRK11660 242619000086 Sulfate transporter family; Region: Sulfate_transp; pfam00916 242619000087 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 242619000088 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 242619000089 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 242619000090 CoA binding domain; Region: CoA_binding; smart00881 242619000091 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 242619000092 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 242619000093 Peptidase C25 family N-terminal domain, found in Arg-gingipain (Rgp), Lys-gingipain (Kgp) and related proteins; Region: Peptidase_C25_N; cd02258 242619000094 active site 242619000095 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 242619000096 homotrimer interaction site [polypeptide binding]; other site 242619000097 zinc binding site [ion binding]; other site 242619000098 CDP-binding sites; other site 242619000099 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 242619000100 active site 242619000101 catalytic motif [active] 242619000102 Zn binding site [ion binding]; other site 242619000103 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 242619000104 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 242619000105 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 242619000106 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 242619000107 RmuC family; Region: RmuC; pfam02646 242619000108 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 242619000109 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 242619000110 catalytic residues [active] 242619000111 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 242619000112 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 242619000113 active site 242619000114 PHP Thumb interface [polypeptide binding]; other site 242619000115 metal binding site [ion binding]; metal-binding site 242619000116 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 242619000117 generic binding surface II; other site 242619000118 generic binding surface I; other site 242619000119 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 242619000120 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 242619000121 putative transposase OrfB; Reviewed; Region: PHA02517 242619000122 Integrase core domain; Region: rve; pfam00665 242619000123 Integrase core domain; Region: rve_3; pfam13683 242619000124 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 242619000125 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 242619000126 dimer interface [polypeptide binding]; other site 242619000127 active site 242619000128 glycine-pyridoxal phosphate binding site [chemical binding]; other site 242619000129 folate binding site [chemical binding]; other site 242619000130 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 242619000131 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 242619000132 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 242619000133 active site 242619000134 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 242619000135 PA14 domain; Region: PA14; pfam07691 242619000136 heat shock protein 90; Provisional; Region: PRK05218 242619000137 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 242619000138 ATP binding site [chemical binding]; other site 242619000139 Mg2+ binding site [ion binding]; other site 242619000140 G-X-G motif; other site 242619000141 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 242619000142 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 242619000143 FtsH Extracellular; Region: FtsH_ext; pfam06480 242619000144 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 242619000145 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 242619000146 Walker A motif; other site 242619000147 ATP binding site [chemical binding]; other site 242619000148 Walker B motif; other site 242619000149 arginine finger; other site 242619000150 Peptidase family M41; Region: Peptidase_M41; pfam01434 242619000151 GTP-binding protein YchF; Reviewed; Region: PRK09601 242619000152 YchF GTPase; Region: YchF; cd01900 242619000153 G1 box; other site 242619000154 GTP/Mg2+ binding site [chemical binding]; other site 242619000155 Switch I region; other site 242619000156 G2 box; other site 242619000157 Switch II region; other site 242619000158 G3 box; other site 242619000159 G4 box; other site 242619000160 G5 box; other site 242619000161 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 242619000162 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 242619000163 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 242619000164 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 242619000165 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 242619000166 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 242619000167 ATP binding site [chemical binding]; other site 242619000168 Mg2+ binding site [ion binding]; other site 242619000169 G-X-G motif; other site 242619000170 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 242619000171 DHH family; Region: DHH; pfam01368 242619000172 DHHA1 domain; Region: DHHA1; pfam02272 242619000173 PspC domain; Region: PspC; pfam04024 242619000174 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 242619000175 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting; Region: PncB_like; cd01401 242619000176 active site 242619000177 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 242619000178 nicotinate (nicotinamide) nucleotide adenylyltransferase; Region: TIGR00482 242619000179 active site 242619000180 (T/H)XGH motif; other site 242619000181 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 242619000182 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 242619000183 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1649 242619000184 PIF1-like helicase; Region: PIF1; pfam05970 242619000185 AAA domain; Region: AAA_30; pfam13604 242619000186 Family description; Region: UvrD_C_2; pfam13538 242619000187 TPR repeat; Region: TPR_11; pfam13414 242619000188 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 242619000189 TPR motif; other site 242619000190 binding surface 242619000191 Outer membrane efflux protein; Region: OEP; pfam02321 242619000192 Outer membrane efflux protein; Region: OEP; pfam02321 242619000193 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 242619000194 Protein export membrane protein; Region: SecD_SecF; cl14618 242619000195 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 242619000196 HlyD family secretion protein; Region: HlyD_3; pfam13437 242619000197 putative carbohydrate kinase; Provisional; Region: PRK10565 242619000198 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 242619000199 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 242619000200 putative substrate binding site [chemical binding]; other site 242619000201 putative ATP binding site [chemical binding]; other site 242619000202 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 242619000203 acyl-[acyl-carrier-protein]--UDP-N- acetylglucosamine O-acyltransferase; Region: lipid_A_lpxA; TIGR01852 242619000204 active site 242619000205 bifunctional UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase/(3R)-hydroxymyristoyl-[acyl-carrier-protein] dehydratase; Reviewed; Region: PRK13188 242619000206 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 242619000207 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 242619000208 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 242619000209 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 242619000210 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 242619000211 trimer interface [polypeptide binding]; other site 242619000212 active site 242619000213 UDP-GlcNAc binding site [chemical binding]; other site 242619000214 lipid binding site [chemical binding]; lipid-binding site 242619000215 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 242619000216 active site 242619000217 dimer interface [polypeptide binding]; other site 242619000218 Protein of unknown function (DUF327); Region: DUF327; cl00753 242619000219 peptide chain release factor 1; Validated; Region: prfA; PRK00591 242619000220 This domain is found in peptide chain release factors; Region: PCRF; smart00937 242619000221 RF-1 domain; Region: RF-1; pfam00472 242619000222 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 242619000223 dimerization interface [polypeptide binding]; other site 242619000224 putative ATP binding site [chemical binding]; other site 242619000225 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 242619000226 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 242619000227 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 242619000228 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 242619000229 RloB-like protein; Region: RloB; pfam13707 242619000230 AAA domain; Region: AAA_21; pfam13304 242619000231 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 242619000232 ABC transporter signature motif; other site 242619000233 Walker B; other site 242619000234 D-loop; other site 242619000235 H-loop/switch region; other site 242619000236 Bacterial Ig-like domain; Region: Big_5; pfam13205 242619000237 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 242619000238 Putative glycoside hydrolase xylanase; Region: Xylanase; pfam13201 242619000239 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 242619000240 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 242619000241 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 242619000242 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 242619000243 alpha-galactosidase; Region: PLN02808; cl17638 242619000244 helicase 45; Provisional; Region: PTZ00424 242619000245 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 242619000246 ATP binding site [chemical binding]; other site 242619000247 Mg++ binding site [ion binding]; other site 242619000248 motif III; other site 242619000249 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 242619000250 nucleotide binding region [chemical binding]; other site 242619000251 ATP-binding site [chemical binding]; other site 242619000252 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 242619000253 RNA binding site [nucleotide binding]; other site 242619000254 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 242619000255 putative active site [active] 242619000256 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 242619000257 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 242619000258 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 242619000259 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 242619000260 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 242619000261 dimerization interface [polypeptide binding]; other site 242619000262 DPS ferroxidase diiron center [ion binding]; other site 242619000263 ion pore; other site 242619000264 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 242619000265 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 242619000266 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 242619000267 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 242619000268 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 242619000269 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 242619000270 ABC exporter membrane fusion protein, DevB family; Region: heterocyst_DevB; TIGR02971 242619000271 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 242619000272 HlyD family secretion protein; Region: HlyD_3; pfam13437 242619000273 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 242619000274 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 242619000275 MutS domain I; Region: MutS_I; pfam01624 242619000276 MutS domain II; Region: MutS_II; pfam05188 242619000277 MutS domain III; Region: MutS_III; pfam05192 242619000278 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 242619000279 Walker A/P-loop; other site 242619000280 ATP binding site [chemical binding]; other site 242619000281 Q-loop/lid; other site 242619000282 ABC transporter signature motif; other site 242619000283 Walker B; other site 242619000284 D-loop; other site 242619000285 H-loop/switch region; other site 242619000286 hypothetical protein; Provisional; Region: PRK12378 242619000287 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 242619000288 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 242619000289 putative tRNA-binding site [nucleotide binding]; other site 242619000290 B3/4 domain; Region: B3_4; pfam03483 242619000291 tRNA synthetase B5 domain; Region: B5; smart00874 242619000292 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 242619000293 dimer interface [polypeptide binding]; other site 242619000294 motif 1; other site 242619000295 motif 3; other site 242619000296 motif 2; other site 242619000297 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 242619000298 DNA topoisomerase III, bacteria and conjugative plasmid; Region: topB; TIGR01056 242619000299 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 242619000300 active site 242619000301 putative interdomain interaction site [polypeptide binding]; other site 242619000302 putative metal-binding site [ion binding]; other site 242619000303 putative nucleotide binding site [chemical binding]; other site 242619000304 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 242619000305 domain I; other site 242619000306 DNA binding groove [nucleotide binding] 242619000307 phosphate binding site [ion binding]; other site 242619000308 domain II; other site 242619000309 domain III; other site 242619000310 nucleotide binding site [chemical binding]; other site 242619000311 catalytic site [active] 242619000312 domain IV; other site 242619000313 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 242619000314 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 242619000315 Mg++ binding site [ion binding]; other site 242619000316 putative catalytic motif [active] 242619000317 substrate binding site [chemical binding]; other site 242619000318 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 242619000319 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 242619000320 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 242619000321 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 242619000322 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 242619000323 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 242619000324 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 242619000325 active site 242619000326 AMP binding site [chemical binding]; other site 242619000327 Aminoglycoside 3-N-acetyltransferase; Region: Antibiotic_NAT; pfam02522 242619000328 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u8; cd10932 242619000329 NodB motif; other site 242619000330 putative active site [active] 242619000331 putative catalytic site [active] 242619000332 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 242619000333 putative trimer interface [polypeptide binding]; other site 242619000334 putative CoA binding site [chemical binding]; other site 242619000335 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 242619000336 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 242619000337 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 242619000338 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 242619000339 active site 242619000340 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 242619000341 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 242619000342 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 242619000343 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 242619000344 active site 242619000345 homodimer interface [polypeptide binding]; other site 242619000346 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 242619000347 IHF - DNA interface [nucleotide binding]; other site 242619000348 IHF dimer interface [polypeptide binding]; other site 242619000349 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 242619000350 Uncharacterized conserved protein [Function unknown]; Region: COG1739 242619000351 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 242619000352 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 242619000353 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 242619000354 ferrochelatase; Reviewed; Region: hemH; PRK00035 242619000355 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 242619000356 C-terminal domain interface [polypeptide binding]; other site 242619000357 active site 242619000358 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 242619000359 active site 242619000360 N-terminal domain interface [polypeptide binding]; other site 242619000361 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 242619000362 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 242619000363 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 242619000364 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 242619000365 catalytic core [active] 242619000366 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 242619000367 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 242619000368 MgtE intracellular N domain; Region: MgtE_N; smart00924 242619000369 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 242619000370 Divalent cation transporter; Region: MgtE; pfam01769 242619000371 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 242619000372 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 242619000373 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 242619000374 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 242619000375 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 242619000376 metal binding site [ion binding]; metal-binding site 242619000377 dimer interface [polypeptide binding]; other site 242619000378 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 242619000379 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 242619000380 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 242619000381 N-acetyl-D-glucosamine binding site [chemical binding]; other site 242619000382 catalytic residue [active] 242619000383 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 242619000384 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 242619000385 ParB-like nuclease domain; Region: ParBc; pfam02195 242619000386 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 242619000387 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 242619000388 P-loop; other site 242619000389 Magnesium ion binding site [ion binding]; other site 242619000390 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 242619000391 Magnesium ion binding site [ion binding]; other site 242619000392 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 242619000393 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 242619000394 putative active site; other site 242619000395 catalytic triad [active] 242619000396 putative dimer interface [polypeptide binding]; other site 242619000397 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 242619000398 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 242619000399 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 242619000400 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 242619000401 Walker A motif; other site 242619000402 ATP binding site [chemical binding]; other site 242619000403 Walker B motif; other site 242619000404 arginine finger; other site 242619000405 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 242619000406 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 242619000407 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 242619000408 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 242619000409 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 242619000410 FeS/SAM binding site; other site 242619000411 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 242619000412 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 242619000413 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 242619000414 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 242619000415 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 242619000416 dimer interface [polypeptide binding]; other site 242619000417 active site 242619000418 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 242619000419 catalytic residues [active] 242619000420 substrate binding site [chemical binding]; other site 242619000421 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 242619000422 EcAspRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli aspartyl-tRNA synthetase (AspRS), the human mitochondrial (mt) AspRS-2, the discriminating (D) Thermus thermophilus AspRS-1, and the nondiscriminating (ND)...; Region: EcAspRS_like_N; cd04317 242619000423 dimer interface [polypeptide binding]; other site 242619000424 anticodon binding site; other site 242619000425 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 242619000426 homodimer interface [polypeptide binding]; other site 242619000427 motif 1; other site 242619000428 active site 242619000429 motif 2; other site 242619000430 GAD domain; Region: GAD; pfam02938 242619000431 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 242619000432 motif 3; other site 242619000433 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 242619000434 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 242619000435 catalytic motif [active] 242619000436 Zn binding site [ion binding]; other site 242619000437 RibD C-terminal domain; Region: RibD_C; pfam01872 242619000438 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 242619000439 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 242619000440 S-adenosylmethionine binding site [chemical binding]; other site 242619000441 RecX family; Region: RecX; pfam02631 242619000442 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 242619000443 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 242619000444 active site 242619000445 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 242619000446 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 242619000447 active site 242619000448 Zn binding site [ion binding]; other site 242619000449 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 242619000450 active site 242619000451 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 242619000452 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 242619000453 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 242619000454 DNA binding residues [nucleotide binding] 242619000455 diphosphate--fructose-6-phosphate 1-phosphotransferase; Provisional; Region: PRK07085 242619000456 pyrophosphate-dependent phosphofructokinase; Region: PLN02251 242619000457 active site 242619000458 ADP/pyrophosphate binding site [chemical binding]; other site 242619000459 dimerization interface [polypeptide binding]; other site 242619000460 allosteric effector site; other site 242619000461 fructose-1,6-bisphosphate binding site; other site 242619000462 Domain of unknown function (DUF1905); Region: DUF1905; pfam08922 242619000463 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 242619000464 RNA binding surface [nucleotide binding]; other site 242619000465 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 242619000466 putative active site [active] 242619000467 catalytic residue [active] 242619000468 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 242619000469 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 242619000470 5S rRNA interface [nucleotide binding]; other site 242619000471 CTC domain interface [polypeptide binding]; other site 242619000472 L16 interface [polypeptide binding]; other site 242619000473 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 242619000474 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 242619000475 active site 242619000476 HIGH motif; other site 242619000477 KMSKS motif; other site 242619000478 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 242619000479 tRNA binding surface [nucleotide binding]; other site 242619000480 anticodon binding site; other site 242619000481 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 242619000482 dimer interface [polypeptide binding]; other site 242619000483 putative tRNA-binding site [nucleotide binding]; other site 242619000484 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 242619000485 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 242619000486 active site 242619000487 metal binding site [ion binding]; metal-binding site 242619000488 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 242619000489 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 242619000490 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 242619000491 active site 242619000492 catalytic site [active] 242619000493 substrate binding site [chemical binding]; other site 242619000494 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 242619000495 Protein of unknown function (DUF1661); Region: DUF1661; pfam07877 242619000496 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 242619000497 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 242619000498 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 242619000499 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 242619000500 Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar...; Region: RHOD_Pyr_redox; cd01524 242619000501 active site residue [active] 242619000502 SirA_RHOD_Pry_redox. SirA-like domain located within a multidomain protein of unknown function. Other domains include RHOD (rhodanese homology domain), and Pry_redox (pyridine nucleotide-disulphide oxidoreductase) as well as a C-terminal domain that...; Region: SirA_RHOD_Pry_redox; cd03420 242619000503 CPxP motif; other site 242619000504 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 242619000505 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 242619000506 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 242619000507 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 242619000508 Fimbrillin-A associated anchor proteins Mfa1 and Mfa2; Region: Mfa2; pfam08842 242619000509 Fimbrillin-A associated anchor proteins Mfa1 and Mfa2; Region: Mfa2; pfam08842 242619000510 Major fimbrial subunit protein (FimA); Region: P_gingi_FimA; pfam06321 242619000511 Major fimbrial subunit protein (FimA); Region: P_gingi_FimA; pfam06321 242619000512 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 242619000513 metal ion-dependent adhesion site (MIDAS); other site 242619000514 Transposase domain (DUF772); Region: DUF772; pfam05598 242619000515 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 242619000516 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 242619000517 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 242619000518 Cna protein B-type domain; Region: Cna_B_2; pfam13715 242619000519 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 242619000520 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 242619000521 starch binding outer membrane protein SusD; Region: SusD; cl17845 242619000522 SusD family; Region: SusD; pfam07980 242619000523 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14836 242619000524 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 242619000525 catalytic residue [active] 242619000526 putative FPP diphosphate binding site; other site 242619000527 putative FPP binding hydrophobic cleft; other site 242619000528 dimer interface [polypeptide binding]; other site 242619000529 putative IPP diphosphate binding site; other site 242619000530 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 242619000531 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 242619000532 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 242619000533 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 242619000534 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 242619000535 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 242619000536 Surface antigen; Region: Bac_surface_Ag; pfam01103 242619000537 periplasmic chaperone; Provisional; Region: PRK10780 242619000538 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 242619000539 periplasmic chaperone; Provisional; Region: PRK10780 242619000540 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 242619000541 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 242619000542 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 242619000543 Rubrerythrin [Energy production and conversion]; Region: COG1592 242619000544 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 242619000545 binuclear metal center [ion binding]; other site 242619000546 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 242619000547 iron binding site [ion binding]; other site 242619000548 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 242619000549 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 242619000550 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 242619000551 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 242619000552 Protein of unknown function (DUF805); Region: DUF805; pfam05656 242619000553 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 242619000554 active site 242619000555 hypothetical protein; Validated; Region: PRK00041 242619000556 ribonuclease P; Reviewed; Region: rnpA; PRK01903 242619000557 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 242619000558 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 242619000559 active site 242619000560 Domain of unknown function (DUF4271); Region: DUF4271; pfam14093 242619000561 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 242619000562 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 242619000563 G1 box; other site 242619000564 putative GEF interaction site [polypeptide binding]; other site 242619000565 GTP/Mg2+ binding site [chemical binding]; other site 242619000566 Switch I region; other site 242619000567 G2 box; other site 242619000568 G3 box; other site 242619000569 Switch II region; other site 242619000570 G4 box; other site 242619000571 G5 box; other site 242619000572 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 242619000573 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 242619000574 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 242619000575 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 242619000576 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 242619000577 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 242619000578 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 242619000579 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 242619000580 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 242619000581 active site 242619000582 SAM binding site [chemical binding]; other site 242619000583 homodimer interface [polypeptide binding]; other site 242619000584 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 242619000585 active site 242619000586 putative homodimer interface [polypeptide binding]; other site 242619000587 SAM binding site [chemical binding]; other site 242619000588 cobalt-precorrin-6Y C(15)-methyltransferase; Validated; Region: PRK08287 242619000589 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 242619000590 S-adenosylmethionine binding site [chemical binding]; other site 242619000591 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 242619000592 active site 242619000593 SAM binding site [chemical binding]; other site 242619000594 homodimer interface [polypeptide binding]; other site 242619000595 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 242619000596 Precorrin-8X methylmutase; Region: CbiC; pfam02570 242619000597 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 242619000598 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 242619000599 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 242619000600 DNA binding residues [nucleotide binding] 242619000601 Domain of unknown function (DUF4252); Region: DUF4252; pfam14060 242619000602 Uncharacterized protein/domain associated with GTPases [Function unknown]; Region: COG3597 242619000603 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 242619000604 an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; Region: DNA_pol_III_epsilon_like; cd06130 242619000605 active site 242619000606 catalytic site [active] 242619000607 substrate binding site [chemical binding]; other site 242619000608 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 242619000609 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 242619000610 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 242619000611 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 242619000612 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 242619000613 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 242619000614 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 242619000615 DNA repair protein RadA; Provisional; Region: PRK11823 242619000616 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 242619000617 Walker A motif/ATP binding site; other site 242619000618 ATP binding site [chemical binding]; other site 242619000619 Walker B motif; other site 242619000620 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 242619000621 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 242619000622 Amidinotransferase; Region: Amidinotransf; cl12043 242619000623 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 242619000624 active site 242619000625 intersubunit interactions; other site 242619000626 catalytic residue [active] 242619000627 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 242619000628 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 242619000629 active site 242619000630 Zn binding site [ion binding]; other site 242619000631 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 242619000632 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 242619000633 FOG: PKD repeat [General function prediction only]; Region: COG3291 242619000634 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 242619000635 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 242619000636 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 242619000637 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 242619000638 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 242619000639 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 242619000640 protein binding site [polypeptide binding]; other site 242619000641 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 242619000642 Catalytic dyad [active] 242619000643 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 242619000644 ligand binding site [chemical binding]; other site 242619000645 active site 242619000646 UGI interface [polypeptide binding]; other site 242619000647 catalytic site [active] 242619000648 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 242619000649 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 242619000650 motif II; other site 242619000651 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 242619000652 Predicted methyltransferases [General function prediction only]; Region: COG0313 242619000653 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 242619000654 putative SAM binding site [chemical binding]; other site 242619000655 putative homodimer interface [polypeptide binding]; other site 242619000656 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 242619000657 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 242619000658 Ligand Binding Site [chemical binding]; other site 242619000659 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 242619000660 Ligand Binding Site [chemical binding]; other site 242619000661 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 242619000662 putative rRNA binding site [nucleotide binding]; other site 242619000663 Pyruvate/oxaloacetate carboxyltransferase [Energy production and conversion]; Region: COG5016 242619000664 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 242619000665 active site 242619000666 catalytic residues [active] 242619000667 metal binding site [ion binding]; metal-binding site 242619000668 hypothetical protein; Validated; Region: PRK02001 242619000669 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 242619000670 NusA N-terminal domain; Region: NusA_N; pfam08529 242619000671 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 242619000672 RNA binding site [nucleotide binding]; other site 242619000673 homodimer interface [polypeptide binding]; other site 242619000674 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 242619000675 G-X-X-G motif; other site 242619000676 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 242619000677 G-X-X-G motif; other site 242619000678 translation initiation factor IF-2; Region: IF-2; TIGR00487 242619000679 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 242619000680 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 242619000681 G1 box; other site 242619000682 putative GEF interaction site [polypeptide binding]; other site 242619000683 GTP/Mg2+ binding site [chemical binding]; other site 242619000684 Switch I region; other site 242619000685 G2 box; other site 242619000686 G3 box; other site 242619000687 Switch II region; other site 242619000688 G4 box; other site 242619000689 G5 box; other site 242619000690 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 242619000691 Translation-initiation factor 2; Region: IF-2; pfam11987 242619000692 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 242619000693 Colicin V production protein; Region: Colicin_V; pfam02674 242619000694 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 242619000695 putative ABC transporter; Region: ycf24; CHL00085 242619000696 FeS assembly ATPase SufC; Region: sufC; TIGR01978 242619000697 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 242619000698 Walker A/P-loop; other site 242619000699 ATP binding site [chemical binding]; other site 242619000700 Q-loop/lid; other site 242619000701 ABC transporter signature motif; other site 242619000702 Walker B; other site 242619000703 D-loop; other site 242619000704 H-loop/switch region; other site 242619000705 FeS assembly protein SufD; Region: sufD; TIGR01981 242619000706 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 242619000707 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 242619000708 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 242619000709 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 242619000710 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 242619000711 active site 242619000712 HIGH motif; other site 242619000713 dimer interface [polypeptide binding]; other site 242619000714 KMSKS motif; other site 242619000715 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 242619000716 RNA binding surface [nucleotide binding]; other site 242619000717 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 242619000718 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 242619000719 Probable Catalytic site; other site 242619000720 metal-binding site 242619000721 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 242619000722 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 242619000723 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 242619000724 active site 242619000725 HIGH motif; other site 242619000726 nucleotide binding site [chemical binding]; other site 242619000727 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 242619000728 KMSK motif region; other site 242619000729 tRNA binding surface [nucleotide binding]; other site 242619000730 DALR anticodon binding domain; Region: DALR_1; smart00836 242619000731 anticodon binding site; other site 242619000732 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 242619000733 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 242619000734 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 242619000735 putative active site [active] 242619000736 putative catalytic site [active] 242619000737 putative DNA binding site [nucleotide binding]; other site 242619000738 putative phosphate binding site [ion binding]; other site 242619000739 metal binding site A [ion binding]; metal-binding site 242619000740 putative AP binding site [nucleotide binding]; other site 242619000741 putative metal binding site B [ion binding]; other site 242619000742 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 242619000743 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 242619000744 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 242619000745 dimerization interface [polypeptide binding]; other site 242619000746 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 242619000747 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 242619000748 dimer interface [polypeptide binding]; other site 242619000749 ssDNA binding site [nucleotide binding]; other site 242619000750 tetramer (dimer of dimers) interface [polypeptide binding]; other site 242619000751 Domain of unknown function DUF21; Region: DUF21; pfam01595 242619000752 gliding motility-associated protein GldE; Region: GldE; TIGR03520 242619000753 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 242619000754 Transporter associated domain; Region: CorC_HlyC; smart01091 242619000755 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 242619000756 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 242619000757 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 242619000758 catalytic residues [active] 242619000759 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 242619000760 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 242619000761 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 242619000762 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 242619000763 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 242619000764 Malic enzyme, N-terminal domain; Region: malic; pfam00390 242619000765 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 242619000766 putative NAD(P) binding site [chemical binding]; other site 242619000767 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 242619000768 FtsX-like permease family; Region: FtsX; pfam02687 242619000769 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 242619000770 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 242619000771 FtsX-like permease family; Region: FtsX; pfam02687 242619000772 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 242619000773 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 242619000774 Walker A/P-loop; other site 242619000775 ATP binding site [chemical binding]; other site 242619000776 Q-loop/lid; other site 242619000777 ABC transporter signature motif; other site 242619000778 Walker B; other site 242619000779 D-loop; other site 242619000780 H-loop/switch region; other site 242619000781 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 242619000782 HlyD family secretion protein; Region: HlyD_3; pfam13437 242619000783 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 242619000784 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 242619000785 Bacteroidetes-specific putative membrane protein; Region: Bac_Flav_fam_1; TIGR03519 242619000786 gliding motility-associated lipoprotein GldK; Region: GldK; TIGR03525 242619000787 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 242619000788 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 242619000789 gliding motility-associated protein GldL; Region: GldL_gliding; TIGR03513 242619000790 gliding motility-associated protein GldM; Region: GldM_gliding; TIGR03517 242619000791 GldM N-terminal domain; Region: GldM_N; pfam12081 242619000792 GldM C-terminal domain; Region: GldM_C; pfam12080 242619000793 gliding motility associated protien GldN; Region: GldN; TIGR03523 242619000794 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 242619000795 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 242619000796 Glycosyltransferase like family 2; Region: Glyco_tranf_2_2; pfam10111 242619000797 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 242619000798 active site 242619000799 N-terminal domain of galactosyltransferase; Region: Glyco_transf_7C; cl17476 242619000800 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 242619000801 DNA protecting protein DprA; Region: dprA; TIGR00732 242619000802 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 242619000803 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 242619000804 dimerization interface [polypeptide binding]; other site 242619000805 ATP binding site [chemical binding]; other site 242619000806 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 242619000807 dimerization interface [polypeptide binding]; other site 242619000808 ATP binding site [chemical binding]; other site 242619000809 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 242619000810 putative active site [active] 242619000811 catalytic triad [active] 242619000812 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 242619000813 TPR motif; other site 242619000814 TPR repeat; Region: TPR_11; pfam13414 242619000815 binding surface 242619000816 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 242619000817 binding surface 242619000818 TPR motif; other site 242619000819 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 242619000820 TPR motif; other site 242619000821 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 242619000822 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 242619000823 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 242619000824 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 242619000825 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 242619000826 SLBB domain; Region: SLBB; pfam10531 242619000827 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 242619000828 electron transport complex, RnfABCDGE type, D subunit; Region: rnfD; TIGR01946 242619000829 electron transport complex, RnfABCDGE type, G subunit; Region: rnfG; TIGR01947 242619000830 electron transport complex RsxE subunit; Provisional; Region: PRK12405 242619000831 electron transport complex, RnfABCDGE type, A subunit; Region: rnfA; TIGR01943 242619000832 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 242619000833 ApbE family; Region: ApbE; pfam02424 242619000834 Nitroreductase-like family 3. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_3; cd02139 242619000835 putative FMN binding site [chemical binding]; other site 242619000836 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 242619000837 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 242619000838 Ligand binding site; other site 242619000839 Putative Catalytic site; other site 242619000840 DXD motif; other site 242619000841 Protein of unknown function (DUF4199); Region: DUF4199; pfam13858 242619000842 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 242619000843 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 242619000844 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 242619000845 seryl-tRNA synthetase; Provisional; Region: PRK05431 242619000846 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 242619000847 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 242619000848 dimer interface [polypeptide binding]; other site 242619000849 active site 242619000850 motif 1; other site 242619000851 motif 2; other site 242619000852 motif 3; other site 242619000853 Peptidase family M49; Region: Peptidase_M49; pfam03571 242619000854 A new structural DNA glycosylase; Region: AlkD_like; cl11434 242619000855 active site 242619000856 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 242619000857 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 242619000858 membrane ATPase/protein kinase; Provisional; Region: PRK09435 242619000859 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 242619000860 Walker A; other site 242619000861 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 242619000862 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 242619000863 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 242619000864 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 242619000865 active sites [active] 242619000866 tetramer interface [polypeptide binding]; other site 242619000867 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 242619000868 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 242619000869 Nucleoside recognition; Region: Gate; pfam07670 242619000870 imidazolonepropionase; Validated; Region: PRK09356 242619000871 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 242619000872 active site 242619000873 Glutamate formiminotransferase [Amino acid transport and metabolism]; Region: COG3643 242619000874 Formiminotransferase domain, N-terminal subdomain; Region: FTCD_N; pfam07837 242619000875 Formiminotransferase domain; Region: FTCD; pfam02971 242619000876 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 242619000877 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 242619000878 transcription termination factor Rho; Provisional; Region: PRK12608 242619000879 RNA binding site [nucleotide binding]; other site 242619000880 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 242619000881 multimer interface [polypeptide binding]; other site 242619000882 Walker A motif; other site 242619000883 ATP binding site [chemical binding]; other site 242619000884 Walker B motif; other site 242619000885 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 242619000886 EamA-like transporter family; Region: EamA; pfam00892 242619000887 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 242619000888 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 242619000889 Ligand binding site; other site 242619000890 Putative Catalytic site; other site 242619000891 DXD motif; other site 242619000892 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 242619000893 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 242619000894 methionine gamma-lyase; Provisional; Region: PRK06234 242619000895 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 242619000896 homodimer interface [polypeptide binding]; other site 242619000897 substrate-cofactor binding pocket; other site 242619000898 pyridoxal 5'-phosphate binding site [chemical binding]; other site 242619000899 catalytic residue [active] 242619000900 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 242619000901 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 242619000902 active site 242619000903 metal binding site [ion binding]; metal-binding site 242619000904 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 242619000905 G1 box; other site 242619000906 GTP/Mg2+ binding site [chemical binding]; other site 242619000907 Switch I region; other site 242619000908 G2 box; other site 242619000909 G3 box; other site 242619000910 Switch II region; other site 242619000911 G4 box; other site 242619000912 G5 box; other site 242619000913 UDP-glucose 4-epimerase; Region: PLN02240 242619000914 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 242619000915 NAD binding site [chemical binding]; other site 242619000916 homodimer interface [polypeptide binding]; other site 242619000917 active site 242619000918 substrate binding site [chemical binding]; other site 242619000919 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 242619000920 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 242619000921 generic binding surface II; other site 242619000922 ssDNA binding site; other site 242619000923 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 242619000924 ATP binding site [chemical binding]; other site 242619000925 putative Mg++ binding site [ion binding]; other site 242619000926 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 242619000927 nucleotide binding region [chemical binding]; other site 242619000928 ATP-binding site [chemical binding]; other site 242619000929 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 242619000930 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 242619000931 active site 242619000932 motif I; other site 242619000933 motif II; other site 242619000934 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 242619000935 Leucine-rich repeats; other site 242619000936 Substrate binding site [chemical binding]; other site 242619000937 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 242619000938 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 242619000939 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 242619000940 catalytic site [active] 242619000941 BNR repeat-like domain; Region: BNR_2; pfam13088 242619000942 Asp-box motif; other site 242619000943 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 242619000944 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 242619000945 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 242619000946 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 242619000947 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 242619000948 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 242619000949 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 242619000950 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 242619000951 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 242619000952 Repair protein; Region: Repair_PSII; pfam04536 242619000953 Ribosomal protein S27; Region: Ribosomal_S27e; cl00897 242619000954 Domain of unknown function (DUF4289); Region: DUF4289; pfam14121 242619000955 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 242619000956 substrate binding pocket [chemical binding]; other site 242619000957 membrane-bound complex binding site; other site 242619000958 hinge residues; other site 242619000959 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 242619000960 PUA domain; Region: PUA; cl00607 242619000961 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 242619000962 putative RNA binding site [nucleotide binding]; other site 242619000963 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 242619000964 S-adenosylmethionine binding site [chemical binding]; other site 242619000965 DEDDy 3'-5' exonuclease domain of WRN and similar proteins; Region: WRN_exo; cd06141 242619000966 catalytic site [active] 242619000967 putative active site [active] 242619000968 putative substrate binding site [chemical binding]; other site 242619000969 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 242619000970 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 242619000971 ATP binding site [chemical binding]; other site 242619000972 Mg2+ binding site [ion binding]; other site 242619000973 G-X-G motif; other site 242619000974 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 242619000975 anchoring element; other site 242619000976 dimer interface [polypeptide binding]; other site 242619000977 ATP binding site [chemical binding]; other site 242619000978 TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands...; Region: TOPRIM_TopoIIA_like; cd01030 242619000979 active site 242619000980 putative metal-binding site [ion binding]; other site 242619000981 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 242619000982 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 242619000983 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 242619000984 active site 242619000985 (T/H)XGH motif; other site 242619000986 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 242619000987 23S rRNA interface [nucleotide binding]; other site 242619000988 L3 interface [polypeptide binding]; other site 242619000989 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 242619000990 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 242619000991 rRNA interaction site [nucleotide binding]; other site 242619000992 S8 interaction site; other site 242619000993 putative laminin-1 binding site; other site 242619000994 elongation factor Ts; Provisional; Region: tsf; PRK09377 242619000995 UBA/TS-N domain; Region: UBA; pfam00627 242619000996 Elongation factor TS; Region: EF_TS; pfam00889 242619000997 Elongation factor TS; Region: EF_TS; pfam00889 242619000998 excinuclease ABC subunit B; Provisional; Region: PRK05298 242619000999 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 242619001000 ATP binding site [chemical binding]; other site 242619001001 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 242619001002 nucleotide binding region [chemical binding]; other site 242619001003 ATP-binding site [chemical binding]; other site 242619001004 Ultra-violet resistance protein B; Region: UvrB; pfam12344 242619001005 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 242619001006 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 242619001007 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 242619001008 Walker A motif; other site 242619001009 ATP binding site [chemical binding]; other site 242619001010 Walker B motif; other site 242619001011 arginine finger; other site 242619001012 Uncharacterized protein containing a TIR (Toll-Interleukin 1-resistance) domain [Function unknown]; Region: COG4916 242619001013 TIR domain; Region: TIR_2; pfam13676 242619001014 RIP metalloprotease RseP; Region: TIGR00054 242619001015 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 242619001016 active site 242619001017 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 242619001018 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 242619001019 protein binding site [polypeptide binding]; other site 242619001020 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 242619001021 putative substrate binding region [chemical binding]; other site 242619001022 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 242619001023 MutS domain III; Region: MutS_III; pfam05192 242619001024 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 242619001025 Walker A/P-loop; other site 242619001026 ATP binding site [chemical binding]; other site 242619001027 Q-loop/lid; other site 242619001028 ABC transporter signature motif; other site 242619001029 Walker B; other site 242619001030 D-loop; other site 242619001031 H-loop/switch region; other site 242619001032 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 242619001033 Smr domain; Region: Smr; pfam01713 242619001034 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 242619001035 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 242619001036 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 242619001037 active site 242619001038 Int/Topo IB signature motif; other site 242619001039 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 242619001040 30S subunit binding site; other site 242619001041 elongation factor Tu; Reviewed; Region: PRK12735 242619001042 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 242619001043 G1 box; other site 242619001044 GEF interaction site [polypeptide binding]; other site 242619001045 GTP/Mg2+ binding site [chemical binding]; other site 242619001046 Switch I region; other site 242619001047 G2 box; other site 242619001048 G3 box; other site 242619001049 Switch II region; other site 242619001050 G4 box; other site 242619001051 G5 box; other site 242619001052 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 242619001053 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 242619001054 Antibiotic Binding Site [chemical binding]; other site 242619001055 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 242619001056 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 242619001057 putative homodimer interface [polypeptide binding]; other site 242619001058 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 242619001059 heterodimer interface [polypeptide binding]; other site 242619001060 homodimer interface [polypeptide binding]; other site 242619001061 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 242619001062 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 242619001063 23S rRNA interface [nucleotide binding]; other site 242619001064 L7/L12 interface [polypeptide binding]; other site 242619001065 putative thiostrepton binding site; other site 242619001066 L25 interface [polypeptide binding]; other site 242619001067 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 242619001068 mRNA/rRNA interface [nucleotide binding]; other site 242619001069 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 242619001070 23S rRNA interface [nucleotide binding]; other site 242619001071 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 242619001072 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 242619001073 core dimer interface [polypeptide binding]; other site 242619001074 peripheral dimer interface [polypeptide binding]; other site 242619001075 L10 interface [polypeptide binding]; other site 242619001076 L11 interface [polypeptide binding]; other site 242619001077 putative EF-Tu interaction site [polypeptide binding]; other site 242619001078 putative EF-G interaction site [polypeptide binding]; other site 242619001079 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; pfam04563 242619001080 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 242619001081 DNA-directed RNA polymerase, beta subunit; Region: rpoB; TIGR02013 242619001082 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 242619001083 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 242619001084 RPB12 interaction site [polypeptide binding]; other site 242619001085 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 242619001086 RPB11 interaction site [polypeptide binding]; other site 242619001087 RPB12 interaction site [polypeptide binding]; other site 242619001088 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 242619001089 RPB3 interaction site [polypeptide binding]; other site 242619001090 RPB1 interaction site [polypeptide binding]; other site 242619001091 RPB11 interaction site [polypeptide binding]; other site 242619001092 RPB10 interaction site [polypeptide binding]; other site 242619001093 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 242619001094 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 242619001095 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 242619001096 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 242619001097 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 242619001098 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 242619001099 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 242619001100 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 242619001101 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 242619001102 DNA binding site [nucleotide binding] 242619001103 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 242619001104 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 242619001105 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 242619001106 ligand binding site [chemical binding]; other site 242619001107 flexible hinge region; other site 242619001108 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 242619001109 putative switch regulator; other site 242619001110 non-specific DNA interactions [nucleotide binding]; other site 242619001111 DNA binding site [nucleotide binding] 242619001112 sequence specific DNA binding site [nucleotide binding]; other site 242619001113 putative cAMP binding site [chemical binding]; other site 242619001114 Protein of unknown function (DUF721); Region: DUF721; pfam05258 242619001115 recombination protein F; Reviewed; Region: recF; PRK00064 242619001116 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 242619001117 Walker A/P-loop; other site 242619001118 ATP binding site [chemical binding]; other site 242619001119 Q-loop/lid; other site 242619001120 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 242619001121 ABC transporter signature motif; other site 242619001122 Walker B; other site 242619001123 D-loop; other site 242619001124 H-loop/switch region; other site 242619001125 gliding motility-associated lipoprotein GldH; Region: GldH_lipo; TIGR03511 242619001126 PSP1 C-terminal conserved region; Region: PSP1; cl00770 242619001127 phosphodiesterase; Provisional; Region: PRK12704 242619001128 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 242619001129 Zn2+ binding site [ion binding]; other site 242619001130 Mg2+ binding site [ion binding]; other site 242619001131 Cell division protein ZapA; Region: ZapA; pfam05164 242619001132 Propeptide_C25; Region: Propeptide_C25; pfam08126 242619001133 Peptidase family C25; Region: Peptidase_C25; pfam01364 242619001134 active site 242619001135 Periplasmic copper-binding protein (NosD); Region: NosD; pfam05048 242619001136 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 242619001137 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 242619001138 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 242619001139 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 242619001140 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 242619001141 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 242619001142 ATP binding site [chemical binding]; other site 242619001143 Mg2+ binding site [ion binding]; other site 242619001144 G-X-G motif; other site 242619001145 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 242619001146 ATP binding site [chemical binding]; other site 242619001147 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 242619001148 OstA-like protein; Region: OstA_2; pfam13100 242619001149 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 242619001150 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 242619001151 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 242619001152 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 242619001153 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 242619001154 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 242619001155 ATP binding site [chemical binding]; other site 242619001156 putative Mg++ binding site [ion binding]; other site 242619001157 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 242619001158 nucleotide binding region [chemical binding]; other site 242619001159 ATP-binding site [chemical binding]; other site 242619001160 RQC domain; Region: RQC; pfam09382 242619001161 HRDC domain; Region: HRDC; pfam00570 242619001162 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 242619001163 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 242619001164 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 242619001165 Walker A motif; other site 242619001166 ATP binding site [chemical binding]; other site 242619001167 Walker B motif; other site 242619001168 arginine finger; other site 242619001169 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 242619001170 Clp protease; Region: CLP_protease; pfam00574 242619001171 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 242619001172 oligomer interface [polypeptide binding]; other site 242619001173 active site residues [active] 242619001174 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 242619001175 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 242619001176 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 242619001177 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 242619001178 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 242619001179 S-formylglutathione hydrolase; Region: PLN02442 242619001180 Putative esterase; Region: Esterase; pfam00756 242619001181 putative transposase OrfB; Reviewed; Region: PHA02517 242619001182 Integrase core domain; Region: rve; pfam00665 242619001183 Integrase core domain; Region: rve_3; pfam13683 242619001184 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 242619001185 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 242619001186 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 242619001187 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 242619001188 dimer interface [polypeptide binding]; other site 242619001189 PYR/PP interface [polypeptide binding]; other site 242619001190 TPP binding site [chemical binding]; other site 242619001191 substrate binding site [chemical binding]; other site 242619001192 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 242619001193 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 242619001194 TPP-binding site [chemical binding]; other site 242619001195 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 242619001196 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 242619001197 S-adenosylmethionine binding site [chemical binding]; other site 242619001198 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 242619001199 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 242619001200 putative SAM binding site [chemical binding]; other site 242619001201 homodimer interface [polypeptide binding]; other site 242619001202 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 242619001203 Chain length determinant protein; Region: Wzz; cl15801 242619001204 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 242619001205 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 242619001206 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 242619001207 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 242619001208 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 242619001209 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 242619001210 SLBB domain; Region: SLBB; pfam10531 242619001211 GLPGLI family protein; Region: GLPGLI; TIGR01200 242619001212 GLPGLI family protein; Region: GLPGLI; TIGR01200 242619001213 Cna protein B-type domain; Region: Cna_B_2; pfam13715 242619001214 OPT oligopeptide transporter protein; Region: OPT; pfam03169 242619001215 putative oligopeptide transporter, OPT family; Region: TIGR00733 242619001216 peptidase T; Region: peptidase-T; TIGR01882 242619001217 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 242619001218 metal binding site [ion binding]; metal-binding site 242619001219 dimer interface [polypeptide binding]; other site 242619001220 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 242619001221 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 242619001222 ATP binding site [chemical binding]; other site 242619001223 substrate interface [chemical binding]; other site 242619001224 pantothenate kinase; Reviewed; Region: PRK13320 242619001225 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 242619001226 TPR repeat; Region: TPR_11; pfam13414 242619001227 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 242619001228 binding surface 242619001229 TPR motif; other site 242619001230 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 242619001231 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 242619001232 Domain of unknown function DUF21; Region: DUF21; pfam01595 242619001233 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 242619001234 Transporter associated domain; Region: CorC_HlyC; smart01091 242619001235 SurA N-terminal domain; Region: SurA_N_3; cl07813 242619001236 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 242619001237 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 242619001238 Predicted membrane protein [Function unknown]; Region: COG3174 242619001239 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 242619001240 PHP domain; Region: PHP; pfam02811 242619001241 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 242619001242 active site 242619001243 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 242619001244 ABC transporter signature motif; other site 242619001245 Walker B; other site 242619001246 D-loop; other site 242619001247 H-loop/switch region; other site 242619001248 putative transposase OrfB; Reviewed; Region: PHA02517 242619001249 Integrase core domain; Region: rve; pfam00665 242619001250 Integrase core domain; Region: rve_3; pfam13683 242619001251 Helix-turn-helix domain; Region: HTH_28; pfam13518 242619001252 Transposase domain (DUF772); Region: DUF772; pfam05598 242619001253 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 242619001254 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 242619001255 Transposase domain (DUF772); Region: DUF772; pfam05598 242619001256 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 242619001257 Major Facilitator Superfamily; Region: MFS_1; pfam07690 242619001258 putative substrate translocation pore; other site 242619001259 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 242619001260 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 242619001261 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 242619001262 GDP-binding site [chemical binding]; other site 242619001263 ACT binding site; other site 242619001264 IMP binding site; other site 242619001265 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 242619001266 metal binding site 2 [ion binding]; metal-binding site 242619001267 putative DNA binding helix; other site 242619001268 metal binding site 1 [ion binding]; metal-binding site 242619001269 structural Zn2+ binding site [ion binding]; other site 242619001270 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 242619001271 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 242619001272 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 242619001273 ligand binding site [chemical binding]; other site 242619001274 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 242619001275 4Fe-4S binding domain; Region: Fer4; cl02805 242619001276 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 242619001277 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 242619001278 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 242619001279 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 242619001280 catalytic residue [active] 242619001281 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 242619001282 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 242619001283 FeS/SAM binding site; other site 242619001284 HemN C-terminal domain; Region: HemN_C; pfam06969 242619001285 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 242619001286 Pantoate-beta-alanine ligase; Region: PanC; cd00560 242619001287 pantoate--beta-alanine ligase; Region: panC; TIGR00018 242619001288 active site 242619001289 ATP-binding site [chemical binding]; other site 242619001290 pantoate-binding site; other site 242619001291 HXXH motif; other site 242619001292 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 242619001293 active site 242619001294 SAM binding site [chemical binding]; other site 242619001295 homodimer interface [polypeptide binding]; other site 242619001296 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 242619001297 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 242619001298 substrate-cofactor binding pocket; other site 242619001299 pyridoxal 5'-phosphate binding site [chemical binding]; other site 242619001300 catalytic residue [active] 242619001301 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 242619001302 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 242619001303 ATP-binding [chemical binding]; other site 242619001304 CoA-binding site [chemical binding]; other site 242619001305 YbbR-like protein; Region: YbbR; pfam07949 242619001306 Preprotein translocase subunit; Region: YajC; pfam02699 242619001307 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 242619001308 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 242619001309 DNA binding site [nucleotide binding] 242619001310 active site 242619001311 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 242619001312 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 242619001313 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 242619001314 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 242619001315 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 242619001316 Walker A motif; other site 242619001317 ATP binding site [chemical binding]; other site 242619001318 Walker B motif; other site 242619001319 arginine finger; other site 242619001320 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 242619001321 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 242619001322 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 242619001323 Domain of unknown function (DUF389); Region: DUF389; pfam04087 242619001324 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 242619001325 Peptidase S46; Region: Peptidase_S46; pfam10459 242619001326 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 242619001327 Uncharacterized protein conserved in Bacteroidetes; Region: Bacuni_01323_like; cd12871 242619001328 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 242619001329 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 242619001330 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 242619001331 S-ribosylhomocysteinase; Provisional; Region: PRK02260 242619001332 Homologues of TraJ from Bacteroides conjugative transposon; Region: CtnDOT_TraJ; pfam07863 242619001333 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 242619001334 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 242619001335 Predicted permeases [General function prediction only]; Region: COG0795 242619001336 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 242619001337 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 242619001338 SmpB-tmRNA interface; other site 242619001339 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 242619001340 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 242619001341 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 242619001342 lipoyl synthase; Provisional; Region: PRK05481 242619001343 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 242619001344 FeS/SAM binding site; other site 242619001345 Propeptide_C25; Region: Propeptide_C25; pfam08126 242619001346 gingipain subgroup of the Peptidase C25 family N-terminal domain; Region: Peptidase_C25_N_gingipain; cd10913 242619001347 active site 242619001348 Peptidase family C25, C terminal ig-like domain; Region: Peptidase_C25_C; pfam03785 242619001349 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 242619001350 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 242619001351 HAD-superfamily subfamily IB hydrolase, TIGR01490; Region: HAD-SF-IB-hyp1 242619001352 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 242619001353 probable rRNA maturation factor YbeY; Region: TIGR00043 242619001354 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 242619001355 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 242619001356 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 242619001357 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 242619001358 catalytic site [active] 242619001359 G-X2-G-X-G-K; other site 242619001360 hypothetical protein; Provisional; Region: PRK11820 242619001361 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 242619001362 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 242619001363 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12901 242619001364 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 242619001365 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 242619001366 nucleotide binding region [chemical binding]; other site 242619001367 ATP-binding site [chemical binding]; other site 242619001368 SEC-C motif; Region: SEC-C; pfam02810 242619001369 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 242619001370 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 242619001371 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 242619001372 CAAX protease self-immunity; Region: Abi; pfam02517 242619001373 chaperonin GroL; Region: GroEL; TIGR02348 242619001374 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 242619001375 ring oligomerisation interface [polypeptide binding]; other site 242619001376 ATP/Mg binding site [chemical binding]; other site 242619001377 stacking interactions; other site 242619001378 hinge regions; other site 242619001379 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 242619001380 oligomerisation interface [polypeptide binding]; other site 242619001381 mobile loop; other site 242619001382 roof hairpin; other site 242619001383 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 242619001384 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 242619001385 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK07107 242619001386 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 242619001387 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_2; cd04602 242619001388 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 242619001389 active site 242619001390 Protein of unknown function (DUF1661); Region: DUF1661; pfam07877 242619001391 CTP synthetase; Validated; Region: pyrG; PRK05380 242619001392 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 242619001393 Catalytic site [active] 242619001394 active site 242619001395 UTP binding site [chemical binding]; other site 242619001396 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 242619001397 active site 242619001398 putative oxyanion hole; other site 242619001399 catalytic triad [active] 242619001400 membrane protein insertase; Provisional; Region: PRK01318 242619001401 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 242619001402 amidophosphoribosyltransferase; Provisional; Region: PRK06781 242619001403 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 242619001404 active site 242619001405 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 242619001406 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 242619001407 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 242619001408 catalytic site [active] 242619001409 subunit interface [polypeptide binding]; other site 242619001410 carbamoyl-phosphate synthase, large subunit; Region: CPSaseII_lrg; TIGR01369 242619001411 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 242619001412 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 242619001413 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 242619001414 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 242619001415 ATP-grasp domain; Region: ATP-grasp_4; cl17255 242619001416 Methylglyoxal synthase-like domain found in pyr1 and URA1-like carbamoyl phosphate synthetases (CPS), including ammonia-dependent CPS Type I, and glutamine-dependent CPS Type III. These are multidomain proteins, in which MGS is the C-terminal domain; Region: MGS_CPS_I_III; cd01423 242619001417 probable substrate binding site [chemical binding]; other site 242619001418 NAD synthetase; Reviewed; Region: nadE; PRK02628 242619001419 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 242619001420 multimer interface [polypeptide binding]; other site 242619001421 active site 242619001422 catalytic triad [active] 242619001423 protein interface 1 [polypeptide binding]; other site 242619001424 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 242619001425 homodimer interface [polypeptide binding]; other site 242619001426 NAD binding pocket [chemical binding]; other site 242619001427 ATP binding pocket [chemical binding]; other site 242619001428 Mg binding site [ion binding]; other site 242619001429 active-site loop [active] 242619001430 VanW like protein; Region: VanW; pfam04294 242619001431 Cna protein B-type domain; Region: Cna_B_2; pfam13715 242619001432 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 242619001433 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 242619001434 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 242619001435 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 242619001436 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 242619001437 metal binding site [ion binding]; metal-binding site 242619001438 dimer interface [polypeptide binding]; other site 242619001439 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 242619001440 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 242619001441 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 242619001442 HlyD family secretion protein; Region: HlyD_3; pfam13437 242619001443 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 242619001444 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 242619001445 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 242619001446 non-specific DNA binding site [nucleotide binding]; other site 242619001447 salt bridge; other site 242619001448 sequence-specific DNA binding site [nucleotide binding]; other site 242619001449 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N_2; pfam13588 242619001450 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 242619001451 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 242619001452 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 242619001453 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 242619001454 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 242619001455 Helix-turn-helix domain; Region: HTH_17; pfam12728 242619001456 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 242619001457 AAA domain; Region: AAA_14; pfam13173 242619001458 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 242619001459 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 242619001460 dimer interface [polypeptide binding]; other site 242619001461 PYR/PP interface [polypeptide binding]; other site 242619001462 TPP binding site [chemical binding]; other site 242619001463 substrate binding site [chemical binding]; other site 242619001464 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 242619001465 Domain of unknown function; Region: EKR; smart00890 242619001466 4Fe-4S binding domain; Region: Fer4_6; pfam12837 242619001467 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 242619001468 TPP-binding site [chemical binding]; other site 242619001469 dimer interface [polypeptide binding]; other site 242619001470 Transposase domain (DUF772); Region: DUF772; pfam05598 242619001471 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 242619001472 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 242619001473 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 242619001474 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 242619001475 purine nucleoside phosphorylase I, inosine and guanosine-specific; Region: PNPH; TIGR01700 242619001476 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 242619001477 Amidohydrolase; Region: Amidohydro_4; pfam13147 242619001478 active site 242619001479 putative substrate binding pocket [chemical binding]; other site 242619001480 hypothetical protein; Validated; Region: PRK09104 242619001481 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 242619001482 metal binding site [ion binding]; metal-binding site 242619001483 putative dimer interface [polypeptide binding]; other site 242619001484 putative transporter; Validated; Region: PRK03818 242619001485 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 242619001486 TrkA-C domain; Region: TrkA_C; pfam02080 242619001487 TrkA-C domain; Region: TrkA_C; pfam02080 242619001488 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 242619001489 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 242619001490 elongation factor P; Validated; Region: PRK00529 242619001491 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 242619001492 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 242619001493 RNA binding site [nucleotide binding]; other site 242619001494 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 242619001495 RNA binding site [nucleotide binding]; other site 242619001496 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 242619001497 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 242619001498 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 242619001499 MraW methylase family; Region: Methyltransf_5; cl17771 242619001500 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 242619001501 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 242619001502 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 242619001503 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 242619001504 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 242619001505 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 242619001506 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 242619001507 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 242619001508 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 242619001509 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 242619001510 Mg++ binding site [ion binding]; other site 242619001511 putative catalytic motif [active] 242619001512 putative substrate binding site [chemical binding]; other site 242619001513 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 242619001514 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 242619001515 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 242619001516 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 242619001517 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 242619001518 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 242619001519 active site 242619001520 homodimer interface [polypeptide binding]; other site 242619001521 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 242619001522 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 242619001523 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 242619001524 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 242619001525 Cell division protein FtsA; Region: FtsA; smart00842 242619001526 Cell division protein FtsA; Region: FtsA; pfam14450 242619001527 cell division protein FtsZ; Validated; Region: PRK09330 242619001528 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 242619001529 nucleotide binding site [chemical binding]; other site 242619001530 SulA interaction site; other site 242619001531 Yqey-like protein; Region: YqeY; pfam09424 242619001532 Predicted membrane protein [Function unknown]; Region: COG2860 242619001533 UPF0126 domain; Region: UPF0126; pfam03458 242619001534 UPF0126 domain; Region: UPF0126; pfam03458 242619001535 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 242619001536 oligomerization interface [polypeptide binding]; other site 242619001537 active site 242619001538 metal binding site [ion binding]; metal-binding site 242619001539 GMP synthase; Reviewed; Region: guaA; PRK00074 242619001540 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 242619001541 AMP/PPi binding site [chemical binding]; other site 242619001542 candidate oxyanion hole; other site 242619001543 catalytic triad [active] 242619001544 potential glutamine specificity residues [chemical binding]; other site 242619001545 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 242619001546 ATP Binding subdomain [chemical binding]; other site 242619001547 Ligand Binding sites [chemical binding]; other site 242619001548 Dimerization subdomain; other site 242619001549 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 242619001550 Integrase core domain; Region: rve; pfam00665 242619001551 Integrase core domain; Region: rve_3; pfam13683 242619001552 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 242619001553 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 242619001554 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 242619001555 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 242619001556 protein binding site [polypeptide binding]; other site 242619001557 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 242619001558 protein binding site [polypeptide binding]; other site 242619001559 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 242619001560 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 242619001561 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 242619001562 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 242619001563 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 242619001564 DNA binding residues [nucleotide binding] 242619001565 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 242619001566 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 242619001567 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 242619001568 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 242619001569 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 242619001570 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 242619001571 Predicted permeases [General function prediction only]; Region: COG0795 242619001572 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 242619001573 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 242619001574 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 242619001575 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 242619001576 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 242619001577 dimerization interface [polypeptide binding]; other site 242619001578 active site 242619001579 cytidylate kinase; Provisional; Region: cmk; PRK00023 242619001580 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 242619001581 active site 242619001582 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 242619001583 CMP-binding site; other site 242619001584 The sites determining sugar specificity; other site 242619001585 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 242619001586 LytB protein; Region: LYTB; cl00507 242619001587 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 242619001588 putative catalytic site [active] 242619001589 putative metal binding site [ion binding]; other site 242619001590 putative phosphate binding site [ion binding]; other site 242619001591 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 242619001592 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 242619001593 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 242619001594 G1 box; other site 242619001595 putative GEF interaction site [polypeptide binding]; other site 242619001596 GTP/Mg2+ binding site [chemical binding]; other site 242619001597 Switch I region; other site 242619001598 G2 box; other site 242619001599 G3 box; other site 242619001600 Switch II region; other site 242619001601 G4 box; other site 242619001602 G5 box; other site 242619001603 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 242619001604 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 242619001605 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 242619001606 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 242619001607 variable surface protein Vir12; Provisional; Region: PTZ00234 242619001608 peroxiredoxin; Region: AhpC; TIGR03137 242619001609 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 242619001610 dimer interface [polypeptide binding]; other site 242619001611 decamer (pentamer of dimers) interface [polypeptide binding]; other site 242619001612 catalytic triad [active] 242619001613 peroxidatic and resolving cysteines [active] 242619001614 alkyl hydroperoxide reductase subunit F; Region: AhpF; TIGR03140 242619001615 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 242619001616 catalytic residue [active] 242619001617 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 242619001618 catalytic residues [active] 242619001619 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 242619001620 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 242619001621 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 242619001622 Found in ATP-dependent protease La (LON); Region: LON; smart00464 242619001623 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 242619001624 Walker A motif; other site 242619001625 ATP binding site [chemical binding]; other site 242619001626 Walker B motif; other site 242619001627 arginine finger; other site 242619001628 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 242619001629 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 242619001630 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 242619001631 DoxX; Region: DoxX; pfam07681 242619001632 triosephosphate isomerase; Provisional; Region: PRK14567 242619001633 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 242619001634 substrate binding site [chemical binding]; other site 242619001635 dimer interface [polypeptide binding]; other site 242619001636 catalytic triad [active] 242619001637 Sporulation related domain; Region: SPOR; pfam05036 242619001638 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 242619001639 homodecamer interface [polypeptide binding]; other site 242619001640 GTP cyclohydrolase I; Provisional; Region: PLN03044 242619001641 active site 242619001642 putative catalytic site residues [active] 242619001643 zinc binding site [ion binding]; other site 242619001644 GTP-CH-I/GFRP interaction surface; other site 242619001645 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 242619001646 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 242619001647 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 242619001648 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 242619001649 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 242619001650 Walker A/P-loop; other site 242619001651 ATP binding site [chemical binding]; other site 242619001652 Q-loop/lid; other site 242619001653 ABC transporter signature motif; other site 242619001654 Walker B; other site 242619001655 D-loop; other site 242619001656 H-loop/switch region; other site 242619001657 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK01911 242619001658 ATP-NAD kinase; Region: NAD_kinase; pfam01513 242619001659 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 242619001660 active site 242619001661 hydrophilic channel; other site 242619001662 dimerization interface [polypeptide binding]; other site 242619001663 catalytic residues [active] 242619001664 active site lid [active] 242619001665 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 242619001666 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 242619001667 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 242619001668 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 242619001669 DJ-1 family protein; Region: not_thiJ; TIGR01383 242619001670 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 242619001671 conserved cys residue [active] 242619001672 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 242619001673 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 242619001674 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 242619001675 S-adenosylmethionine binding site [chemical binding]; other site 242619001676 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_1; cd13140 242619001677 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 242619001678 thiamine-monophosphate kinase; Region: thiL; TIGR01379 242619001679 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 242619001680 ATP binding site [chemical binding]; other site 242619001681 dimerization interface [polypeptide binding]; other site 242619001682 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 242619001683 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 242619001684 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 242619001685 tandem repeat interface [polypeptide binding]; other site 242619001686 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 242619001687 oligomer interface [polypeptide binding]; other site 242619001688 active site residues [active] 242619001689 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 242619001690 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 242619001691 tandem repeat interface [polypeptide binding]; other site 242619001692 oligomer interface [polypeptide binding]; other site 242619001693 active site residues [active] 242619001694 Adenosylcobinamide amidohydrolase; Region: CbiZ; pfam01955 242619001695 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 242619001696 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 242619001697 Walker A/P-loop; other site 242619001698 ATP binding site [chemical binding]; other site 242619001699 Q-loop/lid; other site 242619001700 ABC transporter signature motif; other site 242619001701 Walker B; other site 242619001702 D-loop; other site 242619001703 H-loop/switch region; other site 242619001704 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 242619001705 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 242619001706 ABC-ATPase subunit interface; other site 242619001707 dimer interface [polypeptide binding]; other site 242619001708 putative PBP binding regions; other site 242619001709 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 242619001710 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 242619001711 intersubunit interface [polypeptide binding]; other site 242619001712 Protein of unknown function (DUF3109); Region: DUF3109; pfam11307 242619001713 Protein of unknown function (DUF3276); Region: DUF3276; pfam11680 242619001714 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 242619001715 Zn2+ binding site [ion binding]; other site 242619001716 Mg2+ binding site [ion binding]; other site 242619001717 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 242619001718 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 242619001719 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 242619001720 phosphoserine phosphatase SerB; Region: serB; TIGR00338 242619001721 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 242619001722 motif II; other site 242619001723 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 242619001724 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 242619001725 Maf-like protein; Region: Maf; pfam02545 242619001726 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 242619001727 active site 242619001728 dimer interface [polypeptide binding]; other site 242619001729 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 242619001730 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 242619001731 active site 242619001732 motif I; other site 242619001733 motif II; other site 242619001734 Uncharacterized conserved protein [Function unknown]; Region: COG5495 242619001735 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 242619001736 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 242619001737 NAD(P)H:flavin oxidoreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_2; cd02151 242619001738 putative FMN binding site [chemical binding]; other site 242619001739 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 242619001740 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 242619001741 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 242619001742 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 242619001743 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 242619001744 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 242619001745 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 242619001746 Cna protein B-type domain; Region: Cna_B_2; pfam13715 242619001747 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 242619001748 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 242619001749 N-terminal plug; other site 242619001750 ligand-binding site [chemical binding]; other site 242619001751 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 242619001752 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_N; cd03412 242619001753 active site 242619001754 C-terminal domain interface [polypeptide binding]; other site 242619001755 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 242619001756 active site 242619001757 N-terminal domain interface [polypeptide binding]; other site 242619001758 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 242619001759 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 242619001760 intersubunit interface [polypeptide binding]; other site 242619001761 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 242619001762 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 242619001763 ABC-ATPase subunit interface; other site 242619001764 dimer interface [polypeptide binding]; other site 242619001765 putative PBP binding regions; other site 242619001766 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 242619001767 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 242619001768 Walker A/P-loop; other site 242619001769 ATP binding site [chemical binding]; other site 242619001770 Q-loop/lid; other site 242619001771 ABC transporter signature motif; other site 242619001772 Walker B; other site 242619001773 D-loop; other site 242619001774 H-loop/switch region; other site 242619001775 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 242619001776 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 242619001777 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 242619001778 dimer interface [polypeptide binding]; other site 242619001779 PYR/PP interface [polypeptide binding]; other site 242619001780 TPP binding site [chemical binding]; other site 242619001781 substrate binding site [chemical binding]; other site 242619001782 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 242619001783 TPP-binding site; other site 242619001784 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 242619001785 malonic semialdehyde reductase; Provisional; Region: PRK10538 242619001786 putative NAD(P) binding site [chemical binding]; other site 242619001787 homodimer interface [polypeptide binding]; other site 242619001788 homotetramer interface [polypeptide binding]; other site 242619001789 active site 242619001790 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 242619001791 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 242619001792 catalytic triad [active] 242619001793 conserved cis-peptide bond; other site 242619001794 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 242619001795 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 242619001796 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 242619001797 HlyD family secretion protein; Region: HlyD_3; pfam13437 242619001798 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 242619001799 FtsX-like permease family; Region: FtsX; pfam02687 242619001800 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 242619001801 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 242619001802 FtsX-like permease family; Region: FtsX; pfam02687 242619001803 FtsX-like permease family; Region: FtsX; pfam02687 242619001804 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 242619001805 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 242619001806 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 242619001807 FtsX-like permease family; Region: FtsX; pfam02687 242619001808 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 242619001809 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 242619001810 Walker A/P-loop; other site 242619001811 ATP binding site [chemical binding]; other site 242619001812 Q-loop/lid; other site 242619001813 ABC transporter signature motif; other site 242619001814 Walker B; other site 242619001815 D-loop; other site 242619001816 H-loop/switch region; other site 242619001817 Uncharacterized conserved protein [Function unknown]; Region: COG2461 242619001818 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 242619001819 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 242619001820 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 242619001821 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 242619001822 putative catalytic cysteine [active] 242619001823 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 242619001824 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 242619001825 active site 242619001826 NAD binding site [chemical binding]; other site 242619001827 metal binding site [ion binding]; metal-binding site 242619001828 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 242619001829 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 242619001830 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 242619001831 NifU-like domain; Region: NifU; cl00484 242619001832 Aromatic ring hydroxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2368 242619001833 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 242619001834 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 242619001835 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 242619001836 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 242619001837 ligand binding site [chemical binding]; other site 242619001838 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 242619001839 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 242619001840 ligand binding site [chemical binding]; other site 242619001841 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 242619001842 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 242619001843 putative homodimer interface [polypeptide binding]; other site 242619001844 putative active site pocket [active] 242619001845 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 242619001846 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 242619001847 homotrimer interface [polypeptide binding]; other site 242619001848 Walker A motif; other site 242619001849 GTP binding site [chemical binding]; other site 242619001850 Walker B motif; other site 242619001851 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 242619001852 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 242619001853 putative dimer interface [polypeptide binding]; other site 242619001854 active site pocket [active] 242619001855 putative cataytic base [active] 242619001856 cobalamin synthase; Reviewed; Region: cobS; PRK00235 242619001857 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 242619001858 catalytic core [active] 242619001859 glutamate racemase; Provisional; Region: PRK00865 242619001860 META domain; Region: META; pfam03724 242619001861 Cna protein B-type domain; Region: Cna_B_2; pfam13715 242619001862 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 242619001863 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 242619001864 N-terminal plug; other site 242619001865 ligand-binding site [chemical binding]; other site 242619001866 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 242619001867 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 242619001868 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 242619001869 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 242619001870 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 242619001871 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 242619001872 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 242619001873 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 242619001874 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 242619001875 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 242619001876 PAS domain; Region: PAS_9; pfam13426 242619001877 putative active site [active] 242619001878 heme pocket [chemical binding]; other site 242619001879 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 242619001880 Glutamine amidotransferase class-I; Region: GATase; pfam00117 242619001881 glutamine binding [chemical binding]; other site 242619001882 catalytic triad [active] 242619001883 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 242619001884 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 242619001885 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 242619001886 Cl binding site [ion binding]; other site 242619001887 oligomer interface [polypeptide binding]; other site 242619001888 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 242619001889 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 242619001890 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 242619001891 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 242619001892 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 242619001893 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 242619001894 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 242619001895 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 242619001896 dimer interface [polypeptide binding]; other site 242619001897 phosphorylation site [posttranslational modification] 242619001898 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 242619001899 ATP binding site [chemical binding]; other site 242619001900 Mg2+ binding site [ion binding]; other site 242619001901 G-X-G motif; other site 242619001902 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 242619001903 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 242619001904 active site 242619001905 phosphorylation site [posttranslational modification] 242619001906 intermolecular recognition site; other site 242619001907 dimerization interface [polypeptide binding]; other site 242619001908 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 242619001909 DNA binding site [nucleotide binding] 242619001910 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 242619001911 NlpC/P60 family; Region: NLPC_P60; pfam00877 242619001912 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 242619001913 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 242619001914 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 242619001915 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 242619001916 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 242619001917 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 242619001918 PEGA domain; Region: PEGA; pfam08308 242619001919 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 242619001920 putative acyl-acceptor binding pocket; other site 242619001921 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 242619001922 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 242619001923 ATP-grasp domain; Region: ATP-grasp_4; cl17255 242619001924 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 242619001925 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cl02768 242619001926 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 242619001927 Lumazine binding domain; Region: Lum_binding; pfam00677 242619001928 Lumazine binding domain; Region: Lum_binding; pfam00677 242619001929 Nitroreductase-like family 3. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_3; cd02139 242619001930 putative FMN binding site [chemical binding]; other site 242619001931 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 242619001932 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 242619001933 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 242619001934 catalytic residue [active] 242619001935 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 242619001936 RNA/DNA hybrid binding site [nucleotide binding]; other site 242619001937 active site 242619001938 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 242619001939 nucleoside/Zn binding site; other site 242619001940 dimer interface [polypeptide binding]; other site 242619001941 catalytic motif [active] 242619001942 ribonuclease Z; Region: RNase_Z; TIGR02651 242619001943 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 242619001944 NlpC/P60 family; Region: NLPC_P60; pfam00877 242619001945 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 242619001946 active site 242619001947 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 242619001948 AAA domain; Region: AAA_21; pfam13304 242619001949 Walker A/P-loop; other site 242619001950 ATP binding site [chemical binding]; other site 242619001951 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 242619001952 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 242619001953 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 242619001954 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 242619001955 dimer interface [polypeptide binding]; other site 242619001956 active site 242619001957 metal binding site [ion binding]; metal-binding site 242619001958 glutathione binding site [chemical binding]; other site 242619001959 PAS domain; Region: PAS; smart00091 242619001960 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 242619001961 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 242619001962 ATP binding site [chemical binding]; other site 242619001963 Mg2+ binding site [ion binding]; other site 242619001964 G-X-G motif; other site 242619001965 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 242619001966 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 242619001967 active site 242619001968 phosphorylation site [posttranslational modification] 242619001969 intermolecular recognition site; other site 242619001970 dimerization interface [polypeptide binding]; other site 242619001971 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 242619001972 Walker A motif; other site 242619001973 ATP binding site [chemical binding]; other site 242619001974 Walker B motif; other site 242619001975 arginine finger; other site 242619001976 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 242619001977 metal-binding site 242619001978 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 242619001979 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 242619001980 active site 242619001981 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 242619001982 Peptidase family U32; Region: Peptidase_U32; pfam01136 242619001983 Collagenase; Region: DUF3656; pfam12392 242619001984 DNA topoisomerase I; Validated; Region: PRK06599 242619001985 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 242619001986 active site 242619001987 interdomain interaction site; other site 242619001988 putative metal-binding site [ion binding]; other site 242619001989 nucleotide binding site [chemical binding]; other site 242619001990 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 242619001991 domain I; other site 242619001992 DNA binding groove [nucleotide binding] 242619001993 phosphate binding site [ion binding]; other site 242619001994 domain II; other site 242619001995 domain III; other site 242619001996 nucleotide binding site [chemical binding]; other site 242619001997 catalytic site [active] 242619001998 domain IV; other site 242619001999 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 242619002000 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 242619002001 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 242619002002 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 242619002003 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 242619002004 dipeptidyl carboxypeptidase II; Provisional; Region: PRK10280 242619002005 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 242619002006 active site 242619002007 Zn binding site [ion binding]; other site 242619002008 TPR repeat; Region: TPR_11; pfam13414 242619002009 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 242619002010 binding surface 242619002011 TPR motif; other site 242619002012 trigger factor; Region: tig; TIGR00115 242619002013 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 242619002014 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 242619002015 RNase E interface [polypeptide binding]; other site 242619002016 trimer interface [polypeptide binding]; other site 242619002017 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 242619002018 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 242619002019 RNase E interface [polypeptide binding]; other site 242619002020 trimer interface [polypeptide binding]; other site 242619002021 active site 242619002022 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 242619002023 putative nucleic acid binding region [nucleotide binding]; other site 242619002024 G-X-X-G motif; other site 242619002025 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 242619002026 RNA binding site [nucleotide binding]; other site 242619002027 domain interface; other site 242619002028 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 242619002029 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 242619002030 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 242619002031 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 242619002032 FAD binding site [chemical binding]; other site 242619002033 substrate binding site [chemical binding]; other site 242619002034 catalytic residues [active] 242619002035 Acyl-CoA dehydrogenase C terminal; Region: AcylCoA_dehyd_C; pfam12186 242619002036 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 242619002037 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 242619002038 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 242619002039 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 242619002040 Ligand binding site [chemical binding]; other site 242619002041 Electron transfer flavoprotein domain; Region: ETF; pfam01012 242619002042 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 242619002043 Glycoprotease family; Region: Peptidase_M22; pfam00814 242619002044 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 242619002045 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 242619002046 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 242619002047 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 242619002048 Amidohydrolase; Region: Amidohydro_4; pfam13147 242619002049 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 242619002050 active site 242619002051 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 242619002052 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 242619002053 substrate binding pocket [chemical binding]; other site 242619002054 chain length determination region; other site 242619002055 substrate-Mg2+ binding site; other site 242619002056 catalytic residues [active] 242619002057 aspartate-rich region 1; other site 242619002058 active site lid residues [active] 242619002059 aspartate-rich region 2; other site 242619002060 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 242619002061 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 242619002062 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 242619002063 Cna protein B-type domain; Region: Cna_B_2; pfam13715 242619002064 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 242619002065 B3/4 domain; Region: B3_4; pfam03483 242619002066 GTPase CgtA; Reviewed; Region: obgE; PRK12298 242619002067 GTP1/OBG; Region: GTP1_OBG; pfam01018 242619002068 Obg GTPase; Region: Obg; cd01898 242619002069 G1 box; other site 242619002070 GTP/Mg2+ binding site [chemical binding]; other site 242619002071 Switch I region; other site 242619002072 G2 box; other site 242619002073 G3 box; other site 242619002074 Switch II region; other site 242619002075 G4 box; other site 242619002076 G5 box; other site 242619002077 adenylate kinase; Reviewed; Region: adk; PRK00279 242619002078 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 242619002079 AMP-binding site [chemical binding]; other site 242619002080 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 242619002081 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 242619002082 active site 242619002083 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 242619002084 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 242619002085 Transglycosylase; Region: Transgly; pfam00912 242619002086 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 242619002087 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 242619002088 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 242619002089 leucyl-tRNA synthetase, eubacterial and mitochondrial family; Region: leuS_bact; TIGR00396 242619002090 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 242619002091 HIGH motif; other site 242619002092 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 242619002093 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 242619002094 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 242619002095 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 242619002096 active site 242619002097 KMSKS motif; other site 242619002098 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 242619002099 tRNA binding surface [nucleotide binding]; other site 242619002100 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 242619002101 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 242619002102 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 242619002103 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 242619002104 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 242619002105 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 242619002106 active site 242619002107 NTP binding site [chemical binding]; other site 242619002108 metal binding triad [ion binding]; metal-binding site 242619002109 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 242619002110 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 242619002111 Zn2+ binding site [ion binding]; other site 242619002112 Mg2+ binding site [ion binding]; other site 242619002113 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 242619002114 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 242619002115 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 242619002116 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 242619002117 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 242619002118 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 242619002119 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 242619002120 active site 242619002121 trimer interface [polypeptide binding]; other site 242619002122 allosteric site; other site 242619002123 active site lid [active] 242619002124 hexamer (dimer of trimers) interface [polypeptide binding]; other site 242619002125 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 242619002126 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 242619002127 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 242619002128 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 242619002129 diaminopimelate dehydrogenase; Region: DAP-DH; TIGR01921 242619002130 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 242619002131 putative RNA binding site [nucleotide binding]; other site 242619002132 transcription antitermination factor NusB; Region: nusB; TIGR01951 242619002133 Motility related/secretion protein; Region: SprA_N; pfam14349 242619002134 cell surface protein SprA; Region: surface_SprA; TIGR04189 242619002135 Motility related/secretion protein; Region: SprA_N; pfam14349 242619002136 Motility related/secretion protein; Region: SprA_N; pfam14349 242619002137 Motility related/secretion protein; Region: SprA_N; pfam14349 242619002138 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 242619002139 RuvA N terminal domain; Region: RuvA_N; pfam01330 242619002140 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 242619002141 Domain of unknown function (DUF1896); Region: DUF1896; pfam08989 242619002142 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 242619002143 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 242619002144 Int/Topo IB signature motif; other site 242619002145 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 242619002146 Int/Topo IB signature motif; other site 242619002147 Virulence protein [General function prediction only]; Region: COG3943 242619002148 SnoaL-like domain; Region: SnoaL_2; pfam12680 242619002149 Predicted transcriptional regulators [Transcription]; Region: COG1733 242619002150 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 242619002151 Transposase domain (DUF772); Region: DUF772; pfam05598 242619002152 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 242619002153 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 242619002154 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 242619002155 Helix-turn-helix domain; Region: HTH_18; pfam12833 242619002156 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 242619002157 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 242619002158 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 242619002159 Protein of unknown function (DUF3408); Region: DUF3408; pfam11888 242619002160 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 242619002161 Protein of unknown function (DUF3732); Region: DUF3732; pfam12532 242619002162 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 242619002163 active site 242619002164 DNA binding site [nucleotide binding] 242619002165 Int/Topo IB signature motif; other site 242619002166 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 242619002167 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 242619002168 AAA domain; Region: AAA_22; pfam13401 242619002169 CHC2 zinc finger; Region: zf-CHC2; cl17510 242619002170 Toprim-like; Region: Toprim_2; pfam13155 242619002171 active site 242619002172 metal binding site [ion binding]; metal-binding site 242619002173 AAA domain; Region: AAA_25; pfam13481 242619002174 Protein of unknown function (DUF3853); Region: DUF3853; pfam12964 242619002175 helicase superfamily c-terminal domain; Region: HELICc; smart00490 242619002176 ATP-binding site [chemical binding]; other site 242619002177 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 242619002178 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 242619002179 Helix-turn-helix domain; Region: HTH_17; pfam12728 242619002180 AAA domain; Region: AAA_25; pfam13481 242619002181 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 242619002182 Domain of unknown function (DUF4393); Region: DUF4393; pfam14337 242619002183 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 242619002184 non-specific DNA binding site [nucleotide binding]; other site 242619002185 salt bridge; other site 242619002186 sequence-specific DNA binding site [nucleotide binding]; other site 242619002187 HipA N-terminal domain; Region: couple_hipA; TIGR03071 242619002188 HipA-like N-terminal domain; Region: HipA_N; pfam07805 242619002189 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 242619002190 HipA-like C-terminal domain; Region: HipA_C; pfam07804 242619002191 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 242619002192 non-specific DNA binding site [nucleotide binding]; other site 242619002193 salt bridge; other site 242619002194 sequence-specific DNA binding site [nucleotide binding]; other site 242619002195 N-terminal putative catalytic domain of uncharacterized HKD family nucleases fused to putative helicases from the Snf2-like family; Region: PLDc_N_Snf2_like; cd09178 242619002196 PLD-like domain; Region: PLDc_2; pfam13091 242619002197 putative homodimer interface [polypeptide binding]; other site 242619002198 putative active site [active] 242619002199 catalytic site [active] 242619002200 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 242619002201 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 242619002202 putative Mg++ binding site [ion binding]; other site 242619002203 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 242619002204 nucleotide binding region [chemical binding]; other site 242619002205 ATP-binding site [chemical binding]; other site 242619002206 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 242619002207 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 242619002208 multiple promoter invertase; Provisional; Region: mpi; PRK13413 242619002209 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 242619002210 catalytic residues [active] 242619002211 catalytic nucleophile [active] 242619002212 Presynaptic Site I dimer interface [polypeptide binding]; other site 242619002213 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 242619002214 Synaptic Flat tetramer interface [polypeptide binding]; other site 242619002215 Synaptic Site I dimer interface [polypeptide binding]; other site 242619002216 DNA binding site [nucleotide binding] 242619002217 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 242619002218 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 242619002219 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 242619002220 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 242619002221 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 242619002222 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 242619002223 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 242619002224 Helix-turn-helix domain; Region: HTH_17; pfam12728 242619002225 Protein of unknown function (DUF3946); Region: DUF3946; pfam13102 242619002226 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 242619002227 Int/Topo IB signature motif; other site 242619002228 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 242619002229 DNA binding residues [nucleotide binding] 242619002230 Helix-turn-helix domain; Region: HTH_17; pfam12728 242619002231 Helix-turn-helix domain; Region: HTH_17; pfam12728 242619002232 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 242619002233 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 242619002234 trmE is a tRNA modification GTPase; Region: trmE; cd04164 242619002235 G1 box; other site 242619002236 GTP/Mg2+ binding site [chemical binding]; other site 242619002237 Switch I region; other site 242619002238 G2 box; other site 242619002239 Switch II region; other site 242619002240 G3 box; other site 242619002241 G4 box; other site 242619002242 G5 box; other site 242619002243 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 242619002244 gliding motility-associated lipoprotein GldB; Region: GldB_lipo; TIGR03514 242619002245 Homologues of TraJ from Bacteroides conjugative transposon; Region: CtnDOT_TraJ; pfam07863 242619002246 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 242619002247 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 242619002248 catalytic triad [active] 242619002249 recombinase A; Provisional; Region: recA; PRK09354 242619002250 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 242619002251 hexamer interface [polypeptide binding]; other site 242619002252 Walker A motif; other site 242619002253 ATP binding site [chemical binding]; other site 242619002254 Walker B motif; other site 242619002255 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 242619002256 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u7; cd10931 242619002257 putative active site [active] 242619002258 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 242619002259 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 242619002260 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 242619002261 Chorismate mutase type II; Region: CM_2; smart00830 242619002262 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; cl00233 242619002263 catalytic center binding site [active] 242619002264 ATP binding site [chemical binding]; other site 242619002265 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 242619002266 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 242619002267 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 242619002268 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 242619002269 active site 242619002270 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 242619002271 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 242619002272 active site 242619002273 dimer interface [polypeptide binding]; other site 242619002274 hybrid cluster protein; Provisional; Region: PRK05290 242619002275 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 242619002276 ACS interaction site; other site 242619002277 CODH interaction site; other site 242619002278 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 242619002279 hybrid metal cluster; other site 242619002280 hypothetical protein; Reviewed; Region: PRK00024 242619002281 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 242619002282 MPN+ (JAMM) motif; other site 242619002283 Zinc-binding site [ion binding]; other site 242619002284 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 242619002285 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 242619002286 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 242619002287 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 242619002288 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 242619002289 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_3; cd11349 242619002290 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 242619002291 active site 242619002292 catalytic site [active] 242619002293 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 242619002294 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 242619002295 active site 242619002296 nucleophile elbow; other site 242619002297 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 242619002298 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 242619002299 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 242619002300 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 242619002301 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 242619002302 alpha-1,2-mannosidase, putative; Region: aman2_put; TIGR01180 242619002303 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 242619002304 Pyruvoyl-dependent arginine decarboxylase (PvlArgDC); Region: PvlArgDC; cl00849 242619002305 NlpE N-terminal domain; Region: NlpE; pfam04170 242619002306 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 242619002307 putative active site [active] 242619002308 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 242619002309 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 242619002310 phosphopeptide binding site; other site 242619002311 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 242619002312 Predicted membrane protein [Function unknown]; Region: COG2246 242619002313 GtrA-like protein; Region: GtrA; pfam04138 242619002314 dihydroorotase; Reviewed; Region: PRK09236 242619002315 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 242619002316 active site 242619002317 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 242619002318 Putative Catalytic site; other site 242619002319 DXD motif; other site 242619002320 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 242619002321 FtsX-like permease family; Region: FtsX; pfam02687 242619002322 Ribosome-binding factor A; Region: RBFA; pfam02033 242619002323 5'-nucleotidase, lipoprotein e(P4) family; Region: lipo_e_P4; TIGR01533 242619002324 haloacid dehalogenase superfamily, subfamily IA, variant 1 with third motif having Dx(3-4)D or Dx(3-4)E; Region: HAD-SF-IA-v1; TIGR01549 242619002325 thymidine kinase; Provisional; Region: PRK04296 242619002326 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 242619002327 Response regulator receiver domain; Region: Response_reg; pfam00072 242619002328 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 242619002329 active site 242619002330 phosphorylation site [posttranslational modification] 242619002331 intermolecular recognition site; other site 242619002332 dimerization interface [polypeptide binding]; other site 242619002333 PglZ domain; Region: PglZ; pfam08665 242619002334 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 242619002335 DNA polymerase III subunit delta'; Validated; Region: PRK08485 242619002336 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 242619002337 elongation factor G; Reviewed; Region: PRK12740 242619002338 G1 box; other site 242619002339 putative GEF interaction site [polypeptide binding]; other site 242619002340 GTP/Mg2+ binding site [chemical binding]; other site 242619002341 Switch I region; other site 242619002342 G2 box; other site 242619002343 G3 box; other site 242619002344 Switch II region; other site 242619002345 G4 box; other site 242619002346 G5 box; other site 242619002347 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 242619002348 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 242619002349 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 242619002350 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 242619002351 hypothetical protein; Provisional; Region: PRK00955 242619002352 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 242619002353 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14609 242619002354 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 242619002355 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 242619002356 LytTr DNA-binding domain; Region: LytTR; cl04498 242619002357 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 242619002358 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 242619002359 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 242619002360 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 242619002361 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 242619002362 motif II; other site 242619002363 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 242619002364 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 242619002365 putative transposase OrfB; Reviewed; Region: PHA02517 242619002366 Integrase core domain; Region: rve; pfam00665 242619002367 Integrase core domain; Region: rve_3; pfam13683 242619002368 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 242619002369 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 242619002370 ATP-binding cassette domain of an uncharacterized transporter; Region: ABC_putative_ATPase; cd03269 242619002371 Walker A/P-loop; other site 242619002372 ATP binding site [chemical binding]; other site 242619002373 Q-loop/lid; other site 242619002374 ABC transporter signature motif; other site 242619002375 Walker B; other site 242619002376 D-loop; other site 242619002377 H-loop/switch region; other site 242619002378 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 242619002379 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N_2; pfam13588 242619002380 AMP nucleosidase; Provisional; Region: PRK07115 242619002381 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 242619002382 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 242619002383 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 242619002384 lipoyl attachment site [posttranslational modification]; other site 242619002385 AIR carboxylase; Region: AIRC; pfam00731 242619002386 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Provisional; Region: PRK02048 242619002387 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 242619002388 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 242619002389 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 242619002390 trimer interface [polypeptide binding]; other site 242619002391 active site 242619002392 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 242619002393 binding surface 242619002394 TPR motif; other site 242619002395 Tetratricopeptide repeat; Region: TPR_16; pfam13432 242619002396 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 242619002397 TPR motif; other site 242619002398 binding surface 242619002399 TPR repeat; Region: TPR_11; pfam13414 242619002400 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 242619002401 binding surface 242619002402 TPR motif; other site 242619002403 Domain of unknown function (DUF4292); Region: DUF4292; pfam14125 242619002404 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 242619002405 Peptidase family M23; Region: Peptidase_M23; pfam01551 242619002406 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 242619002407 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 242619002408 active site 242619002409 Riboflavin kinase; Region: Flavokinase; pfam01687 242619002410 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 242619002411 Domain of unknown function DUF59; Region: DUF59; pfam01883 242619002412 cell division ATPase MinD, archaeal; Region: minD_arch; TIGR01969 242619002413 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 242619002414 Walker A motif; other site 242619002415 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 242619002416 S-adenosylmethionine binding site [chemical binding]; other site 242619002417 prolyl-tRNA synthetase; Provisional; Region: PRK08661 242619002418 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_arch_euk; cd00778 242619002419 dimer interface [polypeptide binding]; other site 242619002420 motif 1; other site 242619002421 active site 242619002422 motif 2; other site 242619002423 motif 3; other site 242619002424 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in...; Region: ProRS_anticodon_zinc; cd00862 242619002425 anticodon binding site; other site 242619002426 zinc-binding site [ion binding]; other site 242619002427 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 242619002428 Restriction endonuclease [Defense mechanisms]; Region: Mrr; COG1715 242619002429 Mrr N-terminal domain; Region: Mrr_N; pfam14338 242619002430 Restriction endonuclease; Region: Mrr_cat; pfam04471 242619002431 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 242619002432 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 242619002433 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 242619002434 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 242619002435 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 242619002436 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 242619002437 Walker A motif; other site 242619002438 ATP binding site [chemical binding]; other site 242619002439 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 242619002440 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 242619002441 alpha-1,2-mannosidase, putative; Region: aman2_put; TIGR01180 242619002442 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 242619002443 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 242619002444 PhoH-like protein; Region: PhoH; pfam02562 242619002445 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 242619002446 ATP binding site [chemical binding]; other site 242619002447 active site 242619002448 substrate binding site [chemical binding]; other site 242619002449 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 242619002450 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 242619002451 S-adenosylmethionine binding site [chemical binding]; other site 242619002452 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 242619002453 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 242619002454 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 242619002455 shikimate binding site; other site 242619002456 NAD(P) binding site [chemical binding]; other site 242619002457 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 242619002458 Surface antigen; Region: Bac_surface_Ag; pfam01103 242619002459 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 242619002460 TPR repeat; Region: TPR_11; pfam13414 242619002461 binding surface 242619002462 TPR motif; other site 242619002463 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 242619002464 binding surface 242619002465 TPR repeat; Region: TPR_11; pfam13414 242619002466 TPR motif; other site 242619002467 TPR repeat; Region: TPR_11; pfam13414 242619002468 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 242619002469 binding surface 242619002470 TPR motif; other site 242619002471 TPR repeat; Region: TPR_11; pfam13414 242619002472 TPR repeat; Region: TPR_11; pfam13414 242619002473 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 242619002474 binding surface 242619002475 TPR motif; other site 242619002476 Domain of unknown function, B. Theta Gene description (DUF3872); Region: DUF3872; pfam12988 242619002477 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 242619002478 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 242619002479 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 242619002480 DNA binding residues [nucleotide binding] 242619002481 Domain of unknown function (DUF4252); Region: DUF4252; pfam14060 242619002482 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 242619002483 23S rRNA binding site [nucleotide binding]; other site 242619002484 L21 binding site [polypeptide binding]; other site 242619002485 L13 binding site [polypeptide binding]; other site 242619002486 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 242619002487 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 242619002488 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 242619002489 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 242619002490 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 242619002491 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 242619002492 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 242619002493 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 242619002494 active site 242619002495 dimer interface [polypeptide binding]; other site 242619002496 motif 1; other site 242619002497 motif 2; other site 242619002498 motif 3; other site 242619002499 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 242619002500 anticodon binding site; other site 242619002501 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 242619002502 TIGR01777 family protein; Region: yfcH 242619002503 putative NAD(P) binding site [chemical binding]; other site 242619002504 putative active site [active] 242619002505 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 242619002506 non-specific DNA binding site [nucleotide binding]; other site 242619002507 salt bridge; other site 242619002508 sequence-specific DNA binding site [nucleotide binding]; other site 242619002509 Protein of unknown function with HXXEE motif; Region: HXXEE; pfam13787 242619002510 A new structural DNA glycosylase; Region: AlkD_like; cl11434 242619002511 active site 242619002512 Protein of unknown function (DUF1706); Region: DUF1706; pfam08020 242619002513 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 242619002514 dimer interface [polypeptide binding]; other site 242619002515 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 242619002516 dimer interface [polypeptide binding]; other site 242619002517 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 242619002518 Domain of unknown function (DUF4403); Region: DUF4403; pfam14356 242619002519 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 242619002520 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 242619002521 Cna protein B-type domain; Region: Cna_B_2; pfam13715 242619002522 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 242619002523 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 242619002524 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 242619002525 DNA-binding site [nucleotide binding]; DNA binding site 242619002526 envelope glycoprotein E; Provisional; Region: PHA03283 242619002527 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 242619002528 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 242619002529 Walker A/P-loop; other site 242619002530 ATP binding site [chemical binding]; other site 242619002531 Q-loop/lid; other site 242619002532 ABC transporter signature motif; other site 242619002533 Walker B; other site 242619002534 D-loop; other site 242619002535 H-loop/switch region; other site 242619002536 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14329 242619002537 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 242619002538 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 242619002539 FeS/SAM binding site; other site 242619002540 TRAM domain; Region: TRAM; pfam01938 242619002541 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 242619002542 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 242619002543 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 242619002544 SIR2-like domain; Region: SIR2_2; pfam13289 242619002545 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 242619002546 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 242619002547 TPR motif; other site 242619002548 binding surface 242619002549 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 242619002550 binding surface 242619002551 TPR motif; other site 242619002552 pyruvate phosphate dikinase; Provisional; Region: PRK09279 242619002553 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 242619002554 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 242619002555 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 242619002556 Cna protein B-type domain; Region: Cna_B_2; pfam13715 242619002557 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 242619002558 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 242619002559 Predicted ATPase [General function prediction only]; Region: COG4637 242619002560 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 242619002561 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 242619002562 ABC transporter signature motif; other site 242619002563 Walker B; other site 242619002564 D-loop; other site 242619002565 H-loop/switch region; other site 242619002566 Domain of unknown function (DUF4276); Region: DUF4276; pfam14103 242619002567 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 242619002568 binding surface 242619002569 TPR motif; other site 242619002570 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 242619002571 Transposase domain (DUF772); Region: DUF772; pfam05598 242619002572 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 242619002573 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 242619002574 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 242619002575 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 242619002576 Permease; Region: Permease; pfam02405 242619002577 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 242619002578 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 242619002579 Walker A/P-loop; other site 242619002580 ATP binding site [chemical binding]; other site 242619002581 Q-loop/lid; other site 242619002582 ABC transporter signature motif; other site 242619002583 Walker B; other site 242619002584 D-loop; other site 242619002585 H-loop/switch region; other site 242619002586 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 242619002587 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 242619002588 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 242619002589 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 242619002590 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 242619002591 SWIM zinc finger; Region: SWIM; pfam04434 242619002592 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 242619002593 Part of AAA domain; Region: AAA_19; pfam13245 242619002594 Family description; Region: UvrD_C_2; pfam13538 242619002595 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 242619002596 Sulfatase; Region: Sulfatase; pfam00884 242619002597 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 242619002598 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 242619002599 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 242619002600 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 242619002601 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 242619002602 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 242619002603 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 242619002604 G1 box; other site 242619002605 GTP/Mg2+ binding site [chemical binding]; other site 242619002606 Switch I region; other site 242619002607 G2 box; other site 242619002608 G3 box; other site 242619002609 Switch II region; other site 242619002610 G4 box; other site 242619002611 G5 box; other site 242619002612 Nucleoside recognition; Region: Gate; pfam07670 242619002613 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 242619002614 Nucleoside recognition; Region: Gate; pfam07670 242619002615 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 242619002616 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 242619002617 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 242619002618 This entry represents the core domain of the ferrous iron (Fe2+) transport protein FeoA found in bacteria; Region: FeoA; smart00899 242619002619 FeoA domain; Region: FeoA; pfam04023 242619002620 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 242619002621 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 242619002622 active site 242619002623 metal binding site [ion binding]; metal-binding site 242619002624 Sporulation related domain; Region: SPOR; cl10051 242619002625 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 242619002626 mce related protein; Region: MCE; pfam02470 242619002627 O-Antigen ligase; Region: Wzy_C; pfam04932 242619002628 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 242619002629 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 242619002630 DNA binding residues [nucleotide binding] 242619002631 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 242619002632 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 242619002633 ligand binding site [chemical binding]; other site 242619002634 flexible hinge region; other site 242619002635 helix_turn_helix, cAMP Regulatory protein; Region: HTH_CRP; smart00419 242619002636 Calpains, domains IIa, IIb; calcium-dependent cytoplasmic cysteine proteinases, papain-like. Functions in cytoskeletal remodeling processes, cell differentiation, apoptosis and signal transduction; Region: CysPc; cd00044 242619002637 catalytic site [active] 242619002638 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 242619002639 active site 242619002640 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 242619002641 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 242619002642 FeS/SAM binding site; other site 242619002643 Tetratricopeptide repeat; Region: TPR_16; pfam13432 242619002644 Tetratricopeptide repeat; Region: TPR_6; pfam13174 242619002645 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 242619002646 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 242619002647 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 242619002648 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 242619002649 ligand binding site [chemical binding]; other site 242619002650 Homologues of TraJ from Bacteroides conjugative transposon; Region: CtnDOT_TraJ; pfam07863 242619002651 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 242619002652 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 242619002653 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 242619002654 protein binding site [polypeptide binding]; other site 242619002655 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 242619002656 Catalytic dyad [active] 242619002657 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 242619002658 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 242619002659 Transposase [DNA replication, recombination, and repair]; Region: COG5433 242619002660 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 242619002661 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 242619002662 non-specific DNA binding site [nucleotide binding]; other site 242619002663 salt bridge; other site 242619002664 sequence-specific DNA binding site [nucleotide binding]; other site 242619002665 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 242619002666 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 242619002667 FAD binding pocket [chemical binding]; other site 242619002668 FAD binding motif [chemical binding]; other site 242619002669 phosphate binding motif [ion binding]; other site 242619002670 beta-alpha-beta structure motif; other site 242619002671 NAD binding pocket [chemical binding]; other site 242619002672 Iron coordination center [ion binding]; other site 242619002673 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740 242619002674 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 242619002675 heterodimer interface [polypeptide binding]; other site 242619002676 active site 242619002677 FMN binding site [chemical binding]; other site 242619002678 homodimer interface [polypeptide binding]; other site 242619002679 substrate binding site [chemical binding]; other site 242619002680 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 242619002681 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cd03440 242619002682 active site 2 [active] 242619002683 active site 1 [active] 242619002684 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 242619002685 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 242619002686 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cd05188 242619002687 NAD(P) binding site [chemical binding]; other site 242619002688 lysine-2,3-aminomutase; Region: lys_2_3_AblA; TIGR03820 242619002689 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 242619002690 FeS/SAM binding site; other site 242619002691 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 242619002692 Hsp70 protein; Region: HSP70; pfam00012 242619002693 ATP-binding cassette domain of MutS homologs; Region: ABC_MutS_homologs; cd03243 242619002694 Walker A/P-loop; other site 242619002695 ATP binding site [chemical binding]; other site 242619002696 Q-loop/lid; other site 242619002697 ABC transporter signature motif; other site 242619002698 Walker B; other site 242619002699 D-loop; other site 242619002700 H-loop/switch region; other site 242619002701 D-Lysine 5,6-aminomutase alpha subunit; Region: Lys-AminoMut_A; pfam09043 242619002702 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 242619002703 B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase...; Region: B12-binding; cd02067 242619002704 B12 binding site [chemical binding]; other site 242619002705 cobalt ligand [ion binding]; other site 242619002706 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 242619002707 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 242619002708 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 242619002709 FAD binding site [chemical binding]; other site 242619002710 homotetramer interface [polypeptide binding]; other site 242619002711 substrate binding pocket [chemical binding]; other site 242619002712 catalytic base [active] 242619002713 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 242619002714 Ligand binding site [chemical binding]; other site 242619002715 Electron transfer flavoprotein domain; Region: ETF; pfam01012 242619002716 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 242619002717 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 242619002718 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 242619002719 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 242619002720 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 242619002721 substrate binding site [chemical binding]; other site 242619002722 oxyanion hole (OAH) forming residues; other site 242619002723 trimer interface [polypeptide binding]; other site 242619002724 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 242619002725 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 242619002726 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 242619002727 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 242619002728 propionate/acetate kinase; Provisional; Region: PRK12379 242619002729 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 242619002730 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 242619002731 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 242619002732 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 242619002733 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 242619002734 catalytic residues [active] 242619002735 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 242619002736 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 242619002737 FeS/SAM binding site; other site 242619002738 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 242619002739 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 242619002740 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 242619002741 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 242619002742 active site 242619002743 phosphorylation site [posttranslational modification] 242619002744 intermolecular recognition site; other site 242619002745 dimerization interface [polypeptide binding]; other site 242619002746 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 242619002747 DNA binding site [nucleotide binding] 242619002748 DHH family; Region: DHH; pfam01368 242619002749 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 242619002750 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 242619002751 This PGM-like (phosphoglucomutase-like) domain is located C-terminal to a mannose-1-phosphate guanyltransferase domain in a protein of unknown function that is found in both prokaryotes and eukaryotes. This domain belongs to the alpha-D-phosphohexomutase...; Region: PGM_like4; cd05803 242619002752 active site 242619002753 substrate binding site [chemical binding]; other site 242619002754 metal binding site [ion binding]; metal-binding site 242619002755 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 242619002756 TRAM domain; Region: TRAM; cl01282 242619002757 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 242619002758 S-adenosylmethionine binding site [chemical binding]; other site 242619002759 GSCFA family; Region: GSCFA; pfam08885 242619002760 putative bifunctional UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase/alanine racemase; Provisional; Region: PRK11930 242619002761 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 242619002762 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 242619002763 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 242619002764 active site 242619002765 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 242619002766 dimer interface [polypeptide binding]; other site 242619002767 substrate binding site [chemical binding]; other site 242619002768 catalytic residues [active] 242619002769 Methyltransferase domain; Region: Methyltransf_26; pfam13659 242619002770 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 242619002771 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 242619002772 putative active site [active] 242619002773 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 242619002774 nucleotide binding site [chemical binding]; other site 242619002775 putative transporter; Provisional; Region: PRK10484 242619002776 Na(+)/iodide (NIS) and Na(+)/multivitamin (SMVT) cotransporters, and related proteins; solute binding domain; Region: SLC5sbd_NIS-like; cd10326 242619002777 Na binding site [ion binding]; other site 242619002778 Cna protein B-type domain; Region: Cna_B_2; pfam13715 242619002779 recombination factor protein RarA; Reviewed; Region: PRK13342 242619002780 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 242619002781 Walker A motif; other site 242619002782 ATP binding site [chemical binding]; other site 242619002783 Walker B motif; other site 242619002784 arginine finger; other site 242619002785 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 242619002786 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 242619002787 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 242619002788 S-adenosylmethionine binding site [chemical binding]; other site 242619002789 RNA polymerase sigma-54 factor; Region: rpoN_sigma; TIGR02395 242619002790 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 242619002791 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 242619002792 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 242619002793 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 242619002794 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 242619002795 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 242619002796 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 242619002797 tellurium resistance terB-like protein; Region: terB_like; cd07177 242619002798 metal binding site [ion binding]; metal-binding site 242619002799 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 242619002800 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 242619002801 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 242619002802 Int/Topo IB signature motif; other site 242619002803 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 242619002804 tetramerization interface [polypeptide binding]; other site 242619002805 active site 242619002806 signal recognition particle protein; Provisional; Region: PRK10867 242619002807 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 242619002808 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 242619002809 P loop; other site 242619002810 GTP binding site [chemical binding]; other site 242619002811 Signal peptide binding domain; Region: SRP_SPB; pfam02978 242619002812 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14185 242619002813 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 242619002814 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 242619002815 homodimer interface [polypeptide binding]; other site 242619002816 NADP binding site [chemical binding]; other site 242619002817 substrate binding site [chemical binding]; other site 242619002818 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 242619002819 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 242619002820 cation binding site [ion binding]; other site 242619002821 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 242619002822 Clp amino terminal domain; Region: Clp_N; pfam02861 242619002823 Clp amino terminal domain; Region: Clp_N; pfam02861 242619002824 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 242619002825 Walker A motif; other site 242619002826 ATP binding site [chemical binding]; other site 242619002827 Walker B motif; other site 242619002828 arginine finger; other site 242619002829 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 242619002830 Walker A motif; other site 242619002831 ATP binding site [chemical binding]; other site 242619002832 Walker B motif; other site 242619002833 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 242619002834 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 242619002835 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 242619002836 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 242619002837 putative dimer interface [polypeptide binding]; other site 242619002838 putative anticodon binding site; other site 242619002839 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 242619002840 homodimer interface [polypeptide binding]; other site 242619002841 motif 1; other site 242619002842 motif 2; other site 242619002843 active site 242619002844 motif 3; other site 242619002845 adenylosuccinate lyase; Provisional; Region: PRK09285 242619002846 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 242619002847 tetramer interface [polypeptide binding]; other site 242619002848 active site 242619002849 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 242619002850 uracil transporter; Provisional; Region: PRK10720 242619002851 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 242619002852 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 242619002853 putative DNA binding site [nucleotide binding]; other site 242619002854 putative Zn2+ binding site [ion binding]; other site 242619002855 AsnC family; Region: AsnC_trans_reg; pfam01037 242619002856 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 242619002857 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 242619002858 generic binding surface II; other site 242619002859 generic binding surface I; other site 242619002860 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 242619002861 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 242619002862 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 242619002863 active site 242619002864 dimer interface [polypeptide binding]; other site 242619002865 effector binding site; other site 242619002866 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 242619002867 TSCPD domain; Region: TSCPD; cl14834 242619002868 14-3-3 domain; Region: 14-3-3; cl02098 242619002869 Tetratricopeptide repeat; Region: TPR_12; pfam13424 242619002870 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 242619002871 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 242619002872 HIGH motif; other site 242619002873 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 242619002874 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 242619002875 active site 242619002876 KMSKS motif; other site 242619002877 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 242619002878 tRNA binding surface [nucleotide binding]; other site 242619002879 anticodon binding site; other site 242619002880 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 242619002881 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 242619002882 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 242619002883 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 242619002884 Bacterial sugar transferase; Region: Bac_transf; pfam02397 242619002885 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 242619002886 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 242619002887 Ligand Binding Site [chemical binding]; other site 242619002888 Molecular Tunnel; other site 242619002889 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 242619002890 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 242619002891 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 242619002892 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 242619002893 inhibitor-cofactor binding pocket; inhibition site 242619002894 pyridoxal 5'-phosphate binding site [chemical binding]; other site 242619002895 catalytic residue [active] 242619002896 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 242619002897 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 242619002898 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 242619002899 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 242619002900 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 242619002901 Probable Catalytic site; other site 242619002902 metal-binding site 242619002903 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 242619002904 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 242619002905 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 242619002906 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 242619002907 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 242619002908 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 242619002909 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 242619002910 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 242619002911 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 242619002912 acyl-activating enzyme (AAE) consensus motif; other site 242619002913 putative AMP binding site [chemical binding]; other site 242619002914 putative active site [active] 242619002915 putative CoA binding site [chemical binding]; other site 242619002916 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 242619002917 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 242619002918 putative ADP-binding pocket [chemical binding]; other site 242619002919 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 242619002920 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 242619002921 dimer interface [polypeptide binding]; other site 242619002922 active site 242619002923 metal binding site [ion binding]; metal-binding site 242619002924 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 242619002925 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 242619002926 putative active site [active] 242619002927 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 242619002928 RNA binding surface [nucleotide binding]; other site 242619002929 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 242619002930 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 242619002931 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 242619002932 pyridoxal 5'-phosphate binding site [chemical binding]; other site 242619002933 homodimer interface [polypeptide binding]; other site 242619002934 catalytic residue [active] 242619002935 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 242619002936 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 242619002937 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 242619002938 catalytic triad [active] 242619002939 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 242619002940 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 242619002941 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 242619002942 motif II; other site 242619002943 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 242619002944 Cysteine-rich domain; Region: CCG; pfam02754 242619002945 Cysteine-rich domain; Region: CCG; pfam02754 242619002946 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 242619002947 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 242619002948 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 242619002949 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 242619002950 CoenzymeA binding site [chemical binding]; other site 242619002951 subunit interaction site [polypeptide binding]; other site 242619002952 PHB binding site; other site 242619002953 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 242619002954 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 242619002955 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 242619002956 Walker A/P-loop; other site 242619002957 ATP binding site [chemical binding]; other site 242619002958 Q-loop/lid; other site 242619002959 ABC transporter signature motif; other site 242619002960 Walker B; other site 242619002961 D-loop; other site 242619002962 H-loop/switch region; other site 242619002963 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 242619002964 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 242619002965 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 242619002966 Walker A/P-loop; other site 242619002967 ATP binding site [chemical binding]; other site 242619002968 Q-loop/lid; other site 242619002969 ABC transporter signature motif; other site 242619002970 Walker B; other site 242619002971 D-loop; other site 242619002972 H-loop/switch region; other site 242619002973 Transposase domain (DUF772); Region: DUF772; pfam05598 242619002974 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 242619002975 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 242619002976 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 242619002977 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 242619002978 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 242619002979 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 242619002980 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 242619002981 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 242619002982 SGNH_peri1; putative periplasmic member of the SGNH-family of hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known...; Region: SGNH_hydrolase_peri1; cd01825 242619002983 active site 242619002984 catalytic triad [active] 242619002985 oxyanion hole [active] 242619002986 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 242619002987 SGNH_peri1; putative periplasmic member of the SGNH-family of hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known...; Region: SGNH_hydrolase_peri1; cd01825 242619002988 active site 242619002989 oxyanion hole [active] 242619002990 catalytic triad [active] 242619002991 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 242619002992 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 242619002993 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 242619002994 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 242619002995 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 242619002996 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 242619002997 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 242619002998 putative ligand binding site [chemical binding]; other site 242619002999 putative NAD binding site [chemical binding]; other site 242619003000 catalytic site [active] 242619003001 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 242619003002 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 242619003003 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 242619003004 catalytic residue [active] 242619003005 Transposase domain (DUF772); Region: DUF772; pfam05598 242619003006 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 242619003007 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 242619003008 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 242619003009 hydrophobic ligand binding site; other site 242619003010 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 242619003011 non-specific DNA binding site [nucleotide binding]; other site 242619003012 salt bridge; other site 242619003013 sequence-specific DNA binding site [nucleotide binding]; other site 242619003014 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 242619003015 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 242619003016 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 242619003017 nucleotide binding site [chemical binding]; other site 242619003018 NEF interaction site [polypeptide binding]; other site 242619003019 SBD interface [polypeptide binding]; other site 242619003020 Domain of unknown function (DUF4301); Region: DUF4301; pfam14134 242619003021 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 242619003022 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 242619003023 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 242619003024 active site 242619003025 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 242619003026 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 242619003027 trimer interface [polypeptide binding]; other site 242619003028 putative metal binding site [ion binding]; other site 242619003029 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 242619003030 binding surface 242619003031 TPR motif; other site 242619003032 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 242619003033 binding surface 242619003034 TPR motif; other site 242619003035 Tetratricopeptide repeat; Region: TPR_16; pfam13432 242619003036 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 242619003037 TPR motif; other site 242619003038 binding surface 242619003039 Predicted double-stranded RNA/RNA-DNA hybrid binding protein [General function prediction only]; Region: COG3341 242619003040 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 242619003041 RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner; Region: RNase_H; cd06222 242619003042 RNA/DNA hybrid binding site [nucleotide binding]; other site 242619003043 active site 242619003044 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 242619003045 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 242619003046 Domain of unknown function (DUF4293); Region: DUF4293; pfam14126 242619003047 Protein of unknown function (DUF3467); Region: DUF3467; pfam11950 242619003048 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 242619003049 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 242619003050 ligand binding site [chemical binding]; other site 242619003051 NAD binding site [chemical binding]; other site 242619003052 catalytic site [active] 242619003053 homodimer interface [polypeptide binding]; other site 242619003054 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 242619003055 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 242619003056 NAD(P) binding site [chemical binding]; other site 242619003057 active site 242619003058 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 242619003059 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 242619003060 Walker A/P-loop; other site 242619003061 ATP binding site [chemical binding]; other site 242619003062 Q-loop/lid; other site 242619003063 ABC transporter signature motif; other site 242619003064 Walker B; other site 242619003065 D-loop; other site 242619003066 H-loop/switch region; other site 242619003067 ABC transporter; Region: ABC_tran_2; pfam12848 242619003068 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 242619003069 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 242619003070 active site 242619003071 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 242619003072 Zn binding site [ion binding]; other site 242619003073 glutamate dehydrogenase; Provisional; Region: PRK14030 242619003074 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 242619003075 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 242619003076 NAD(P) binding site [chemical binding]; other site 242619003077 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 242619003078 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 242619003079 NAD(P) binding site [chemical binding]; other site 242619003080 active site 242619003081 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 242619003082 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 242619003083 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 242619003084 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 242619003085 DNA binding residues [nucleotide binding] 242619003086 dimerization interface [polypeptide binding]; other site 242619003087 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 242619003088 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 242619003089 NAD(P) binding site [chemical binding]; other site 242619003090 homotetramer interface [polypeptide binding]; other site 242619003091 homodimer interface [polypeptide binding]; other site 242619003092 active site 242619003093 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 242619003094 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 242619003095 GTP-binding protein LepA; Provisional; Region: PRK05433 242619003096 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 242619003097 G1 box; other site 242619003098 putative GEF interaction site [polypeptide binding]; other site 242619003099 GTP/Mg2+ binding site [chemical binding]; other site 242619003100 Switch I region; other site 242619003101 G2 box; other site 242619003102 G3 box; other site 242619003103 Switch II region; other site 242619003104 G4 box; other site 242619003105 G5 box; other site 242619003106 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 242619003107 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 242619003108 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 242619003109 replicative DNA helicase; Region: DnaB; TIGR00665 242619003110 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 242619003111 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 242619003112 Walker A motif; other site 242619003113 ATP binding site [chemical binding]; other site 242619003114 Walker B motif; other site 242619003115 DNA binding loops [nucleotide binding] 242619003116 Transposase domain (DUF772); Region: DUF772; pfam05598 242619003117 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 242619003118 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 242619003119 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 242619003120 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 242619003121 motif 1; other site 242619003122 active site 242619003123 motif 2; other site 242619003124 motif 3; other site 242619003125 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 242619003126 DHHA1 domain; Region: DHHA1; pfam02272 242619003127 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 242619003128 active site 242619003129 dimer interface [polypeptide binding]; other site 242619003130 metal binding site [ion binding]; metal-binding site 242619003131 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 242619003132 A new structural DNA glycosylase; Region: AlkD_like; cd06561 242619003133 active site 242619003134 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 242619003135 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 242619003136 putative acyl-acceptor binding pocket; other site 242619003137 Homologues of TraJ from Bacteroides conjugative transposon; Region: CtnDOT_TraJ; pfam07863 242619003138 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 242619003139 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 242619003140 FtsX-like permease family; Region: FtsX; pfam02687 242619003141 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 242619003142 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 242619003143 nucleotide binding pocket [chemical binding]; other site 242619003144 K-X-D-G motif; other site 242619003145 catalytic site [active] 242619003146 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 242619003147 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 242619003148 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 242619003149 Dimer interface [polypeptide binding]; other site 242619003150 BRCT sequence motif; other site 242619003151 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 242619003152 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 242619003153 Coenzyme A binding pocket [chemical binding]; other site 242619003154 recombination protein RecR; Reviewed; Region: recR; PRK00076 242619003155 RecR protein; Region: RecR; pfam02132 242619003156 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 242619003157 putative active site [active] 242619003158 putative metal-binding site [ion binding]; other site 242619003159 tetramer interface [polypeptide binding]; other site 242619003160 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 242619003161 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 242619003162 homodimer interface [polypeptide binding]; other site 242619003163 oligonucleotide binding site [chemical binding]; other site 242619003164 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 242619003165 IHF - DNA interface [nucleotide binding]; other site 242619003166 IHF dimer interface [polypeptide binding]; other site 242619003167 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 242619003168 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 242619003169 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK07111 242619003170 ATP cone domain; Region: ATP-cone; pfam03477 242619003171 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 242619003172 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 242619003173 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 242619003174 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 242619003175 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 242619003176 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 242619003177 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 242619003178 Delta(1)-pyrroline-5-carboxylate dehydrogenase, ALDH families 4 and 17; Region: ALDH_F4-17_P5CDH; cd07123 242619003179 delta-1-pyrroline-5-carboxylate dehydrogenase, group 1; Region: D1pyr5carbox1; TIGR01236 242619003180 Glutamate binding site [chemical binding]; other site 242619003181 NAD binding site [chemical binding]; other site 242619003182 catalytic residues [active] 242619003183 Uncharacterized protein conserved in bacteria containing a pentein-type domain [Function unknown]; Region: COG4874 242619003184 Amidinotransferase; Region: Amidinotransf; pfam02274 242619003185 ornithine aminotransferase; Region: Orn_aminotrans; TIGR01885 242619003186 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 242619003187 inhibitor-cofactor binding pocket; inhibition site 242619003188 pyridoxal 5'-phosphate binding site [chemical binding]; other site 242619003189 catalytic residue [active] 242619003190 elongation factor P; Validated; Region: PRK00529 242619003191 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 242619003192 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 242619003193 RNA binding site [nucleotide binding]; other site 242619003194 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 242619003195 RNA binding site [nucleotide binding]; other site 242619003196 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 242619003197 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 242619003198 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 242619003199 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 242619003200 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 242619003201 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 242619003202 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 242619003203 catalytic residue [active] 242619003204 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 242619003205 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_3; cd12174 242619003206 putative ligand binding site [chemical binding]; other site 242619003207 putative NAD binding site [chemical binding]; other site 242619003208 putative catalytic site [active] 242619003209 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 242619003210 Uncharacterized conserved protein [Function unknown]; Region: COG4198 242619003211 Domain of unknown function (DUF2027); Region: DUF2027; pfam09640 242619003212 Smr domain; Region: Smr; cl02619 242619003213 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 242619003214 putative active site [active] 242619003215 putative metal binding residues [ion binding]; other site 242619003216 signature motif; other site 242619003217 putative dimer interface [polypeptide binding]; other site 242619003218 putative phosphate binding site [ion binding]; other site 242619003219 Peptidase S46; Region: Peptidase_S46; pfam10459 242619003220 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 242619003221 glucosamine-6-phosphate deaminase-like protein; Validated; Region: PRK02122 242619003222 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 242619003223 active site 242619003224 trimer interface [polypeptide binding]; other site 242619003225 allosteric site; other site 242619003226 active site lid [active] 242619003227 hexamer (dimer of trimers) interface [polypeptide binding]; other site 242619003228 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 242619003229 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 242619003230 Ferritin-like domain; Region: Ferritin; pfam00210 242619003231 ferroxidase diiron center [ion binding]; other site 242619003232 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 242619003233 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 242619003234 NADP-binding site; other site 242619003235 homotetramer interface [polypeptide binding]; other site 242619003236 substrate binding site [chemical binding]; other site 242619003237 homodimer interface [polypeptide binding]; other site 242619003238 active site 242619003239 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 242619003240 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 242619003241 NADP binding site [chemical binding]; other site 242619003242 active site 242619003243 putative substrate binding site [chemical binding]; other site 242619003244 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 242619003245 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 242619003246 homodimer interface [polypeptide binding]; other site 242619003247 substrate-cofactor binding pocket; other site 242619003248 catalytic residue [active] 242619003249 Putative catalytic domain, repeat 1, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_1; cd09172 242619003250 PLD-like domain; Region: PLDc_2; pfam13091 242619003251 putative active site [active] 242619003252 catalytic site [active] 242619003253 Putative catalytic domain, repeat 2, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_2; cd09173 242619003254 PLD-like domain; Region: PLDc_2; pfam13091 242619003255 putative active site [active] 242619003256 catalytic site [active] 242619003257 FeoA domain; Region: FeoA; pfam04023 242619003258 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 242619003259 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 242619003260 G1 box; other site 242619003261 GTP/Mg2+ binding site [chemical binding]; other site 242619003262 Switch I region; other site 242619003263 G2 box; other site 242619003264 G3 box; other site 242619003265 Switch II region; other site 242619003266 G4 box; other site 242619003267 G5 box; other site 242619003268 Nucleoside recognition; Region: Gate; pfam07670 242619003269 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 242619003270 Nucleoside recognition; Region: Gate; pfam07670 242619003271 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 242619003272 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 242619003273 RNA binding site [nucleotide binding]; other site 242619003274 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 242619003275 RNA binding site [nucleotide binding]; other site 242619003276 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 242619003277 RNA binding site [nucleotide binding]; other site 242619003278 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 242619003279 RNA binding site [nucleotide binding]; other site 242619003280 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 242619003281 RNA binding site [nucleotide binding]; other site 242619003282 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 242619003283 RNA binding site [nucleotide binding]; other site 242619003284 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 242619003285 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 242619003286 S-adenosylmethionine binding site [chemical binding]; other site 242619003287 Protein of unknown function (DUF3822); Region: DUF3822; pfam12864 242619003288 AAA domain; Region: AAA_30; pfam13604 242619003289 Family description; Region: UvrD_C_2; pfam13538 242619003290 Protein of unknown function (DUF3078); Region: DUF3078; pfam11276 242619003291 glycine dehydrogenase; Provisional; Region: PRK05367 242619003292 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 242619003293 tetramer interface [polypeptide binding]; other site 242619003294 pyridoxal 5'-phosphate binding site [chemical binding]; other site 242619003295 catalytic residue [active] 242619003296 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 242619003297 tetramer interface [polypeptide binding]; other site 242619003298 pyridoxal 5'-phosphate binding site [chemical binding]; other site 242619003299 catalytic residue [active] 242619003300 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 242619003301 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 242619003302 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 242619003303 S-adenosylmethionine binding site [chemical binding]; other site 242619003304 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 242619003305 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 242619003306 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 242619003307 Ligand Binding Site [chemical binding]; other site 242619003308 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 242619003309 active site 242619003310 metal binding site [ion binding]; metal-binding site 242619003311 homotetramer interface [polypeptide binding]; other site 242619003312 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 242619003313 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 242619003314 putative active site [active] 242619003315 putative metal binding site [ion binding]; other site 242619003316 Peptidase family C69; Region: Peptidase_C69; cl17793 242619003317 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 242619003318 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 242619003319 Tetramer interface [polypeptide binding]; other site 242619003320 active site 242619003321 FMN-binding site [chemical binding]; other site 242619003322 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 242619003323 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 242619003324 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 242619003325 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 242619003326 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 242619003327 DNA binding residues [nucleotide binding] 242619003328 Transposase domain (DUF772); Region: DUF772; pfam05598 242619003329 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 242619003330 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 242619003331 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 242619003332 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 242619003333 Potassium binding sites [ion binding]; other site 242619003334 Cesium cation binding sites [ion binding]; other site 242619003335 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 242619003336 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 242619003337 putative active site [active] 242619003338 PhoH-like protein; Region: PhoH; pfam02562 242619003339 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 242619003340 active site 242619003341 putative DNA-binding cleft [nucleotide binding]; other site 242619003342 dimer interface [polypeptide binding]; other site 242619003343 Domain of unknown function (DUF4286); Region: DUF4286; pfam14114 242619003344 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 242619003345 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 242619003346 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 242619003347 pyridoxal 5'-phosphate binding site [chemical binding]; other site 242619003348 homodimer interface [polypeptide binding]; other site 242619003349 catalytic residue [active] 242619003350 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 242619003351 CoA binding domain; Region: CoA_binding_2; pfam13380 242619003352 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 242619003353 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 242619003354 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 242619003355 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 242619003356 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 242619003357 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 242619003358 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 242619003359 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 242619003360 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 242619003361 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 242619003362 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 242619003363 Catalytic site [active] 242619003364 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 242619003365 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 242619003366 active site 242619003367 DNA binding site [nucleotide binding] 242619003368 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 242619003369 L-lactate permease; Region: Lactate_perm; cl00701 242619003370 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 242619003371 Sporulation related domain; Region: SPOR; pfam05036 242619003372 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 242619003373 FAD binding domain; Region: FAD_binding_4; pfam01565 242619003374 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 242619003375 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 242619003376 putative hydrolase; Provisional; Region: PRK02113 242619003377 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 242619003378 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 242619003379 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 242619003380 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 242619003381 This family is most closely related to the GT1 family of glycosyltransferases. wcfI in Bacteroides fragilis has been shown to be involved in the capsular polysaccharide biosynthesis; Region: GT1_wcfI_like; cd03825 242619003382 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 242619003383 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 242619003384 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 242619003385 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 242619003386 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 242619003387 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 242619003388 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 242619003389 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 242619003390 hydrophobic ligand binding site; other site 242619003391 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 242619003392 active site 242619003393 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 242619003394 C-N hydrolase family amidase; Provisional; Region: PRK10438 242619003395 putative active site [active] 242619003396 catalytic triad [active] 242619003397 dimer interface [polypeptide binding]; other site 242619003398 multimer interface [polypeptide binding]; other site 242619003399 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 242619003400 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 242619003401 putative acyl-acceptor binding pocket; other site 242619003402 Predicted membrane protein [Function unknown]; Region: COG4905 242619003403 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 242619003404 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 242619003405 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 242619003406 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 242619003407 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 242619003408 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 242619003409 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 242619003410 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 242619003411 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 242619003412 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 242619003413 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 242619003414 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 242619003415 Homologues of TraJ from Bacteroides conjugative transposon; Region: CtnDOT_TraJ; pfam07863 242619003416 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 242619003417 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 242619003418 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 242619003419 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 242619003420 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 242619003421 RimM N-terminal domain; Region: RimM; pfam01782 242619003422 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 242619003423 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 242619003424 hinge; other site 242619003425 active site 242619003426 Domain of unknown function (DUF4290); Region: DUF4290; pfam14123 242619003427 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 242619003428 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 242619003429 active site 242619003430 dimer interface [polypeptide binding]; other site 242619003431 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 242619003432 dimer interface [polypeptide binding]; other site 242619003433 active site 242619003434 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GpsA; COG0240 242619003435 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 242619003436 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 242619003437 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 242619003438 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 242619003439 dimer interface [polypeptide binding]; other site 242619003440 putative anticodon binding site; other site 242619003441 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 242619003442 motif 1; other site 242619003443 active site 242619003444 motif 2; other site 242619003445 motif 3; other site 242619003446 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 242619003447 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 242619003448 TPR motif; other site 242619003449 binding surface 242619003450 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 242619003451 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 242619003452 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 242619003453 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 242619003454 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 242619003455 minor groove reading motif; other site 242619003456 helix-hairpin-helix signature motif; other site 242619003457 substrate binding pocket [chemical binding]; other site 242619003458 active site 242619003459 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 242619003460 DNA binding and oxoG recognition site [nucleotide binding] 242619003461 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 242619003462 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 242619003463 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 242619003464 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 242619003465 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 242619003466 Walker A/P-loop; other site 242619003467 ATP binding site [chemical binding]; other site 242619003468 Q-loop/lid; other site 242619003469 ABC transporter signature motif; other site 242619003470 Walker B; other site 242619003471 D-loop; other site 242619003472 H-loop/switch region; other site 242619003473 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 242619003474 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 242619003475 dimer interface [polypeptide binding]; other site 242619003476 conserved gate region; other site 242619003477 putative PBP binding loops; other site 242619003478 ABC-ATPase subunit interface; other site 242619003479 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 242619003480 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 242619003481 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 242619003482 TPR motif; other site 242619003483 binding surface 242619003484 TPR repeat; Region: TPR_11; pfam13414 242619003485 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 242619003486 binding surface 242619003487 TPR motif; other site 242619003488 TPR repeat; Region: TPR_11; pfam13414 242619003489 DNA gyrase subunit A; Validated; Region: PRK05560 242619003490 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 242619003491 CAP-like domain; other site 242619003492 active site 242619003493 primary dimer interface [polypeptide binding]; other site 242619003494 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 242619003495 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 242619003496 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 242619003497 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 242619003498 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 242619003499 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 242619003500 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 242619003501 Protein of unknown function (DUF3256); Region: DUF3256; pfam11644 242619003502 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 242619003503 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 242619003504 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 242619003505 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 242619003506 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 242619003507 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 242619003508 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 242619003509 rod shape-determining protein MreC; Provisional; Region: PRK13922 242619003510 rod shape-determining protein MreC; Region: MreC; pfam04085 242619003511 rod shape-determining protein MreB; Provisional; Region: PRK13927 242619003512 MreB and similar proteins; Region: MreB_like; cd10225 242619003513 nucleotide binding site [chemical binding]; other site 242619003514 Mg binding site [ion binding]; other site 242619003515 putative protofilament interaction site [polypeptide binding]; other site 242619003516 RodZ interaction site [polypeptide binding]; other site 242619003517 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 242619003518 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 242619003519 purine monophosphate binding site [chemical binding]; other site 242619003520 dimer interface [polypeptide binding]; other site 242619003521 putative catalytic residues [active] 242619003522 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 242619003523 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 242619003524 Chlamydia major outer membrane protein; Region: Chlam_OMP; pfam01308 242619003525 tryptophanase/L-cysteine desulfhydrase, PLP-dependent; Provisional; Region: tnaA; PRK13238 242619003526 Tryptophanase family (Tnase). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to tryptophanase (Tnase) and tyrosine phenol-lyase (TPL). Tnase and TPL are...; Region: Tnase_like; cd00617 242619003527 substrate binding site [chemical binding]; other site 242619003528 tetramer interface [polypeptide binding]; other site 242619003529 catalytic residue [active] 242619003530 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; uncharacterized family 2; Region: EEP-2; cd09084 242619003531 putative catalytic site [active] 242619003532 putative metal binding site [ion binding]; other site 242619003533 putative phosphate binding site [ion binding]; other site 242619003534 Rhomboid family; Region: Rhomboid; pfam01694 242619003535 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 242619003536 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 242619003537 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 242619003538 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 242619003539 putative transporter; Validated; Region: PRK03818 242619003540 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 242619003541 TrkA-C domain; Region: TrkA_C; pfam02080 242619003542 TrkA-C domain; Region: TrkA_C; pfam02080 242619003543 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 242619003544 Cna protein B-type domain; Region: Cna_B_2; pfam13715 242619003545 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 242619003546 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 242619003547 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 242619003548 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 242619003549 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 242619003550 FMN binding site [chemical binding]; other site 242619003551 substrate binding site [chemical binding]; other site 242619003552 putative catalytic residue [active] 242619003553 fumarate hydratase; Provisional; Region: PRK15389 242619003554 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 242619003555 Fumarase C-terminus; Region: Fumerase_C; pfam05683 242619003556 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14971 242619003557 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 242619003558 Walker A motif; other site 242619003559 ATP binding site [chemical binding]; other site 242619003560 Walker B motif; other site 242619003561 arginine finger; other site 242619003562 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 242619003563 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 242619003564 putative transposase OrfB; Reviewed; Region: PHA02517 242619003565 Integrase core domain; Region: rve; pfam00665 242619003566 Integrase core domain; Region: rve_3; pfam13683 242619003567 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 242619003568 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 242619003569 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 242619003570 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 242619003571 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 242619003572 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 242619003573 Peptidase C10 family; Region: Peptidase_C10; pfam01640 242619003574 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 242619003575 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 242619003576 homopentamer interface [polypeptide binding]; other site 242619003577 active site 242619003578 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 242619003579 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 242619003580 TPR motif; other site 242619003581 binding surface 242619003582 Tetratricopeptide repeat; Region: TPR_12; pfam13424 242619003583 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 242619003584 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 242619003585 active site 242619003586 phosphorylation site [posttranslational modification] 242619003587 intermolecular recognition site; other site 242619003588 dimerization interface [polypeptide binding]; other site 242619003589 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 242619003590 DNA binding residues [nucleotide binding] 242619003591 dimerization interface [polypeptide binding]; other site 242619003592 Tetratricopeptide repeat; Region: TPR_12; pfam13424 242619003593 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 242619003594 binding surface 242619003595 TPR motif; other site 242619003596 Tetratricopeptide repeat; Region: TPR_12; pfam13424 242619003597 Tetratricopeptide repeat; Region: TPR_12; pfam13424 242619003598 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 242619003599 binding surface 242619003600 TPR motif; other site 242619003601 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 242619003602 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 242619003603 Mg2+ binding site [ion binding]; other site 242619003604 G-X-G motif; other site 242619003605 Exonuclease VII small subunit; Region: Exonuc_VII_S; pfam02609 242619003606 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 242619003607 substrate binding site; other site 242619003608 dimer interface; other site 242619003609 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 242619003610 active site 242619003611 Int/Topo IB signature motif; other site 242619003612 DNA binding site [nucleotide binding] 242619003613 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 242619003614 Protein of unknown function (DUF3408); Region: DUF3408; pfam11888 242619003615 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 242619003616 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 242619003617 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 242619003618 Helix-turn-helix domain; Region: HTH_18; pfam12833 242619003619 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 242619003620 Transposase domain (DUF772); Region: DUF772; pfam05598 242619003621 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 242619003622 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 242619003623 Predicted transcriptional regulators [Transcription]; Region: COG1733 242619003624 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 242619003625 SnoaL-like domain; Region: SnoaL_2; pfam12680 242619003626 Virulence protein [General function prediction only]; Region: COG3943 242619003627 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 242619003628 Int/Topo IB signature motif; other site 242619003629 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 242619003630 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 242619003631 Int/Topo IB signature motif; other site 242619003632 ORF6N domain; Region: ORF6N; pfam10543 242619003633 Domain of unknown function (DUF1896); Region: DUF1896; pfam08989 242619003634 Phospholipid methyltransferase; Region: PEMT; pfam04191 242619003635 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 242619003636 S-adenosylmethionine binding site [chemical binding]; other site 242619003637 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 242619003638 Methyltransferase domain; Region: Methyltransf_26; pfam13659 242619003639 Bacterial PH domain; Region: DUF304; cl01348 242619003640 Domain of unknown function, B. Theta Gene description (DUF3872); Region: DUF3872; pfam12988 242619003641 Conjugative transposon protein TraO; Region: TraO; pfam10626 242619003642 Bacteroides conjugative transposon TraN protein; Region: Bac_Flav_CT_N; TIGR03780 242619003643 Domain of unknown function (DUF4138); Region: DUF4138; pfam13595 242619003644 Bacteroides conjugative transposon TraM protein; Region: Bac_Flav_CT_M; TIGR03779 242619003645 Protein of unknown function (DUF3714); Region: DUF3714; pfam12508 242619003646 Protein of unknown function (DUF3989); Region: DUF3989; pfam13150 242619003647 Bacteroides conjugative transposon TraK protein; Region: Bac_Flav_CT_K; TIGR03781 242619003648 Bacteroides conjugative transposon TraJ protein; Region: Bac_Flav_CT_J; TIGR03782 242619003649 Domain of unknown function (DUF4141); Region: DUF4141; pfam13605 242619003650 Bacteroides conjugation system ATPase, TraG family; Region: Bac_Flav_CT_G; TIGR03783 242619003651 Domain of unknown function, B. Theta Gene description (DUF3875); Region: DUF3875; pfam12991 242619003652 Domain of unknown function (DUF4133); Region: DUF4133; pfam13571 242619003653 Domain of unknown function (DUF4134); Region: DUF4134; pfam13572 242619003654 Protein of unknown function (DUF3408); Region: DUF3408; pfam11888 242619003655 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 242619003656 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 242619003657 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 242619003658 YWFCY protein; Region: YWFCY; pfam14293 242619003659 AAA-like domain; Region: AAA_10; pfam12846 242619003660 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 242619003661 GLPGLI family protein; Region: GLPGLI; TIGR01200 242619003662 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 242619003663 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 242619003664 Protein of unknown function (DUF4099); Region: DUF4099; pfam13351 242619003665 Protein of unknown function (DUF3945); Region: DUF3945; pfam13101 242619003666 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 242619003667 DNA topoisomerase III; Provisional; Region: PRK07726 242619003668 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 242619003669 active site 242619003670 putative interdomain interaction site [polypeptide binding]; other site 242619003671 putative metal-binding site [ion binding]; other site 242619003672 putative nucleotide binding site [chemical binding]; other site 242619003673 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 242619003674 domain I; other site 242619003675 DNA binding groove [nucleotide binding] 242619003676 phosphate binding site [ion binding]; other site 242619003677 domain II; other site 242619003678 domain III; other site 242619003679 nucleotide binding site [chemical binding]; other site 242619003680 catalytic site [active] 242619003681 domain IV; other site 242619003682 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 242619003683 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 242619003684 helicase superfamily c-terminal domain; Region: HELICc; smart00490 242619003685 ATP-binding site [chemical binding]; other site 242619003686 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 242619003687 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 242619003688 LytB protein; Region: LYTB; cl00507 242619003689 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 242619003690 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 242619003691 NAD(P) binding site [chemical binding]; other site 242619003692 active site 242619003693 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 242619003694 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 242619003695 FeS/SAM binding site; other site 242619003696 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 242619003697 haloacid dehalogenase superfamily, subfamily IA, variant 1 with third motif having Dx(3-4)D or Dx(3-4)E; Region: HAD-SF-IA-v1; TIGR01549 242619003698 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 242619003699 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 242619003700 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 242619003701 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 242619003702 catalytic core [active] 242619003703 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 242619003704 active site 242619003705 NAD binding site [chemical binding]; other site 242619003706 metal binding site [ion binding]; metal-binding site 242619003707 Ribulose bisphosphate carboxylase large chain; Region: RuBisCO_large; cl08232 242619003708 dimer interface [polypeptide binding]; other site 242619003709 catalytic residue [active] 242619003710 metal binding site [ion binding]; metal-binding site 242619003711 2-phosphoglycerate kinase; Provisional; Region: PRK04220 242619003712 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 242619003713 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 242619003714 AMP binding site [chemical binding]; other site 242619003715 active site 242619003716 acyl-activating enzyme (AAE) consensus motif; other site 242619003717 CoA binding site [chemical binding]; other site 242619003718 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 242619003719 o-succinylbenzoate synthase; Region: menC_gamma/gm+; TIGR01927 242619003720 active site 242619003721 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 242619003722 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 242619003723 substrate binding site [chemical binding]; other site 242619003724 oxyanion hole (OAH) forming residues; other site 242619003725 trimer interface [polypeptide binding]; other site 242619003726 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylic-acid synthase; Region: menD; TIGR00173 242619003727 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 242619003728 dimer interface [polypeptide binding]; other site 242619003729 tetramer interface [polypeptide binding]; other site 242619003730 PYR/PP interface [polypeptide binding]; other site 242619003731 TPP binding site [chemical binding]; other site 242619003732 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 242619003733 TPP-binding site; other site 242619003734 isochorismate synthases; Region: isochor_syn; TIGR00543 242619003735 Divergent AAA domain; Region: AAA_4; pfam04326 242619003736 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 242619003737 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 242619003738 DNA binding residues [nucleotide binding] 242619003739 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 242619003740 AAA domain; Region: AAA_14; pfam13173 242619003741 NACHT domain; Region: NACHT; pfam05729 242619003742 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 242619003743 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 242619003744 synthetase active site [active] 242619003745 NTP binding site [chemical binding]; other site 242619003746 metal binding site [ion binding]; metal-binding site 242619003747 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 242619003748 DNA binding residues [nucleotide binding] 242619003749 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 242619003750 active site 242619003751 metal binding site [ion binding]; metal-binding site 242619003752 interdomain interaction site; other site 242619003753 AAA domain; Region: AAA_25; pfam13481 242619003754 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 242619003755 Walker A motif; other site 242619003756 ATP binding site [chemical binding]; other site 242619003757 Walker B motif; other site 242619003758 Helix-turn-helix domain; Region: HTH_17; pfam12728 242619003759 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 242619003760 non-specific DNA binding site [nucleotide binding]; other site 242619003761 salt bridge; other site 242619003762 sequence-specific DNA binding site [nucleotide binding]; other site 242619003763 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 242619003764 Protein of unknown function (DUF3098); Region: DUF3098; pfam11297 242619003765 Bacitracin resistance protein BacA; Region: BacA; pfam02673 242619003766 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 242619003767 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 242619003768 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 242619003769 catalytic center binding site [active] 242619003770 ATP binding site [chemical binding]; other site 242619003771 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 242619003772 Peptidase family U32; Region: Peptidase_U32; pfam01136 242619003773 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 242619003774 active site 242619003775 hypothetical protein; Validated; Region: PRK02101 242619003776 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 242619003777 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 242619003778 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 242619003779 Bacterial proteins similar to Porphyromonas gingivalis HmuY; Region: HmuY; cd12105 242619003780 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 242619003781 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 242619003782 N-terminal plug; other site 242619003783 ligand-binding site [chemical binding]; other site 242619003784 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 242619003785 CobN/Magnesium Chelatase; Region: CobN-Mg_chel; pfam02514 242619003786 CobN/Magnesium Chelatase; Region: CobN-Mg_chel; pfam02514 242619003787 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 242619003788 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 242619003789 Uncharacterized conserved protein (DUF2149); Region: DUF2149; pfam09919 242619003790 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 242619003791 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 242619003792 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 242619003793 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 242619003794 NAD binding site [chemical binding]; other site 242619003795 substrate binding site [chemical binding]; other site 242619003796 homodimer interface [polypeptide binding]; other site 242619003797 active site 242619003798 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 242619003799 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 242619003800 NADP binding site [chemical binding]; other site 242619003801 active site 242619003802 putative substrate binding site [chemical binding]; other site 242619003803 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 242619003804 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 242619003805 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 242619003806 substrate binding site; other site 242619003807 tetramer interface; other site 242619003808 Sulfatase; Region: Sulfatase; cl17466 242619003809 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 242619003810 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 242619003811 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 242619003812 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 242619003813 HIGH motif; other site 242619003814 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 242619003815 active site 242619003816 KMSKS motif; other site 242619003817 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 242619003818 active site residue [active] 242619003819 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 242619003820 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 242619003821 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 242619003822 active site residue [active] 242619003823 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 242619003824 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 242619003825 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 242619003826 ligand binding site [chemical binding]; other site 242619003827 flexible hinge region; other site 242619003828 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 242619003829 non-specific DNA interactions [nucleotide binding]; other site 242619003830 DNA binding site [nucleotide binding] 242619003831 sequence specific DNA binding site [nucleotide binding]; other site 242619003832 putative cAMP binding site [chemical binding]; other site 242619003833 L-aspartate oxidase; Provisional; Region: PRK06175 242619003834 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 242619003835 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 242619003836 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 242619003837 nicotinate-nucleotide pyrophosphorylase; Region: nadC; TIGR00078 242619003838 dimerization interface [polypeptide binding]; other site 242619003839 active site 242619003840 Quinolinate synthetase A protein; Region: NadA; pfam02445 242619003841 MoxR-like ATPases [General function prediction only]; Region: COG0714 242619003842 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 242619003843 Walker A motif; other site 242619003844 ATP binding site [chemical binding]; other site 242619003845 Walker B motif; other site 242619003846 arginine finger; other site 242619003847 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 242619003848 Protein of unknown function DUF58; Region: DUF58; pfam01882 242619003849 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 242619003850 metal ion-dependent adhesion site (MIDAS); other site 242619003851 Aerotolerance regulator N-terminal; Region: BatA; pfam07584 242619003852 VWA BatA type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_BatA_type; cd01467 242619003853 metal ion-dependent adhesion site (MIDAS); other site 242619003854 Aerotolerance regulator N-terminal; Region: BatA; pfam07584 242619003855 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 242619003856 metal ion-dependent adhesion site (MIDAS); other site 242619003857 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 242619003858 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 242619003859 TPR motif; other site 242619003860 binding surface 242619003861 Oxygen tolerance; Region: BatD; pfam13584 242619003862 Tetratricopeptide repeat; Region: TPR_16; pfam13432 242619003863 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 242619003864 TPR motif; other site 242619003865 Bacterial SH3 domain homologues; Region: SH3b; smart00287 242619003866 PAP2_like_4 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_4; cd03395 242619003867 active site 242619003868 Uncharacterized conserved protein [Function unknown]; Region: COG1624 242619003869 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 242619003870 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 242619003871 dihydropteroate synthase; Region: DHPS; TIGR01496 242619003872 substrate binding pocket [chemical binding]; other site 242619003873 dimer interface [polypeptide binding]; other site 242619003874 inhibitor binding site; inhibition site 242619003875 Uncharacterized conserved protein [Function unknown]; Region: COG4748 242619003876 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 242619003877 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 242619003878 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 242619003879 Zn2+ binding site [ion binding]; other site 242619003880 Mg2+ binding site [ion binding]; other site 242619003881 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 242619003882 Shikimate kinase; Region: SKI; pfam01202 242619003883 ADP binding site [chemical binding]; other site 242619003884 magnesium binding site [ion binding]; other site 242619003885 putative shikimate binding site; other site 242619003886 Competence protein; Region: Competence; pfam03772 242619003887 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 242619003888 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 242619003889 substrate binding site [chemical binding]; other site 242619003890 hexamer interface [polypeptide binding]; other site 242619003891 metal binding site [ion binding]; metal-binding site 242619003892 isoleucyl-tRNA synthetase; Region: ileS; TIGR00392 242619003893 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 242619003894 HIGH motif; other site 242619003895 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 242619003896 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 242619003897 active site 242619003898 KMSKS motif; other site 242619003899 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 242619003900 tRNA binding surface [nucleotide binding]; other site 242619003901 anticodon binding site; other site 242619003902 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 242619003903 lipoprotein signal peptidase; Provisional; Region: PRK14788 242619003904 Domain of unknown function (DUF4296); Region: DUF4296; pfam14129 242619003905 Acyltransferase family; Region: Acyl_transf_3; pfam01757 242619003906 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 242619003907 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 242619003908 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 242619003909 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 242619003910 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 242619003911 active site 242619003912 dimerization interface [polypeptide binding]; other site 242619003913 Peptidase C1B subfamily (MEROPS database nomenclature); composed of eukaryotic bleomycin hydrolases (BH) and bacterial aminopeptidases C (pepC). The proteins of this subfamily contain a large insert relative to the C1A peptidase (papain) subfamily. BH is...; Region: Peptidase_C1B; cd00585 242619003914 trimer interface [polypeptide binding]; other site 242619003915 active site 242619003916 G bulge; other site 242619003917 Ion channel; Region: Ion_trans_2; pfam07885 242619003918 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 242619003919 putative acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK05641 242619003920 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 242619003921 carboxyltransferase (CT) interaction site; other site 242619003922 biotinylation site [posttranslational modification]; other site 242619003923 Lamin Tail Domain; Region: LTD; pfam00932 242619003924 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 242619003925 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 242619003926 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 242619003927 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 242619003928 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 242619003929 dimer interface [polypeptide binding]; other site 242619003930 substrate binding site [chemical binding]; other site 242619003931 metal binding site [ion binding]; metal-binding site 242619003932 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 242619003933 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 242619003934 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 242619003935 L-aspartate oxidase; Provisional; Region: PRK06175 242619003936 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 242619003937 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 242619003938 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 242619003939 putative Iron-sulfur protein interface [polypeptide binding]; other site 242619003940 proximal heme binding site [chemical binding]; other site 242619003941 distal heme binding site [chemical binding]; other site 242619003942 putative dimer interface [polypeptide binding]; other site 242619003943 Protein of unknown function (DUF452); Region: DUF452; cl01062 242619003944 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 242619003945 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 242619003946 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 242619003947 S-adenosylmethionine binding site [chemical binding]; other site 242619003948 Interphotoreceptor retinoid-binding protein; serine protease family S41; Region: Peptidase_S41_IRBP; cd07563 242619003949 active site triad [active] 242619003950 Protein of unknown function (DUF3316); Region: DUF3316; pfam11777 242619003951 DNA topoisomerase IV subunit A; Provisional; Region: PRK12758 242619003952 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; cl00148 242619003953 CAP-like domain; other site 242619003954 active site 242619003955 primary dimer interface [polypeptide binding]; other site 242619003956 FMN-binding domain; Region: FMN_bind; pfam04205 242619003957 4Fe-4S binding domain; Region: Fer4_5; pfam12801 242619003958 4Fe-4S binding domain; Region: Fer4_5; pfam12801 242619003959 Transposase domain (DUF772); Region: DUF772; pfam05598 242619003960 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 242619003961 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 242619003962 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 242619003963 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 242619003964 active site 242619003965 catalytic residues [active] 242619003966 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 242619003967 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 242619003968 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 242619003969 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 242619003970 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 242619003971 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 242619003972 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 242619003973 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 242619003974 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 242619003975 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 242619003976 catalytic residues [active] 242619003977 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 242619003978 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 242619003979 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 242619003980 Low molecular weight phosphatase family; Region: LMWPc; cd00115 242619003981 active site 242619003982 Integrase core domain; Region: rve; pfam00665 242619003983 Integrase core domain; Region: rve_3; pfam13683 242619003984 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 242619003985 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 242619003986 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 242619003987 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 242619003988 putative active site [active] 242619003989 catalytic site [active] 242619003990 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 242619003991 putative active site [active] 242619003992 catalytic site [active] 242619003993 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 242619003994 HD domain; Region: HD_4; pfam13328 242619003995 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 242619003996 synthetase active site [active] 242619003997 NTP binding site [chemical binding]; other site 242619003998 metal binding site [ion binding]; metal-binding site 242619003999 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 242619004000 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 242619004001 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 242619004002 binding surface 242619004003 TPR motif; other site 242619004004 TPR repeat; Region: TPR_11; pfam13414 242619004005 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 242619004006 binding surface 242619004007 Tetratricopeptide repeat; Region: TPR_16; pfam13432 242619004008 TPR motif; other site 242619004009 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 242619004010 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 242619004011 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 242619004012 active site 242619004013 motif I; other site 242619004014 motif II; other site 242619004015 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 242619004016 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 242619004017 CoenzymeA binding site [chemical binding]; other site 242619004018 subunit interaction site [polypeptide binding]; other site 242619004019 PHB binding site; other site 242619004020 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 242619004021 Protein of unknown function (DUF1661); Region: DUF1661; pfam07877 242619004022 methylmalonyl-CoA mutase, heterodimeric type, beta chain; Region: mmCoA_mut_beta; TIGR00642 242619004023 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Beta subunit-like subfamily; contains bacterial proteins similar to the beta subunit of MCMs from Propionbacterium shermanni and Streptomyces cinnamonensis, which are alpha/beta...; Region: MM_CoA_mutase_beta; cd03677 242619004024 heterodimer interface [polypeptide binding]; other site 242619004025 substrate interaction site [chemical binding]; other site 242619004026 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 242619004027 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 242619004028 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 242619004029 active site 242619004030 substrate binding site [chemical binding]; other site 242619004031 coenzyme B12 binding site [chemical binding]; other site 242619004032 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 242619004033 B12 binding site [chemical binding]; other site 242619004034 cobalt ligand [ion binding]; other site 242619004035 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 242619004036 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 242619004037 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 242619004038 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 242619004039 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 242619004040 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 242619004041 DNA binding residues [nucleotide binding] 242619004042 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 242619004043 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 242619004044 Walker A/P-loop; other site 242619004045 ATP binding site [chemical binding]; other site 242619004046 Q-loop/lid; other site 242619004047 ABC transporter signature motif; other site 242619004048 Walker B; other site 242619004049 D-loop; other site 242619004050 H-loop/switch region; other site 242619004051 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 242619004052 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 242619004053 FtsX-like permease family; Region: FtsX; pfam02687 242619004054 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 242619004055 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 242619004056 FtsX-like permease family; Region: FtsX; pfam02687 242619004057 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 242619004058 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 242619004059 HlyD family secretion protein; Region: HlyD_3; pfam13437 242619004060 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 242619004061 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 242619004062 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 242619004063 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 242619004064 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 242619004065 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 242619004066 active site 242619004067 substrate-binding site [chemical binding]; other site 242619004068 metal-binding site [ion binding] 242619004069 ATP binding site [chemical binding]; other site 242619004070 Phosphoglycerate kinase; Region: PGK; pfam00162 242619004071 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 242619004072 substrate binding site [chemical binding]; other site 242619004073 hinge regions; other site 242619004074 ADP binding site [chemical binding]; other site 242619004075 catalytic site [active] 242619004076 Glycogen debranching enzyme N terminal; Region: GDE_N; pfam12439 242619004077 glycogen debranching enzyme, archaeal type, putative; Region: gde_arch; TIGR01561 242619004078 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 242619004079 glycogen synthase, Corynebacterium family; Region: glgA_Coryne; TIGR02149 242619004080 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 242619004081 N-terminal catalytic domain of a thermoactive alpha-amylase from Methanococcus jannaschii and similar proteins; glycoside hydrolase family 57 (GH57); Region: GH57N_MJA1_like; cd10795 242619004082 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 242619004083 putative active site [active] 242619004084 catalytic site [active] 242619004085 Protein of unknown function, DUF481; Region: DUF481; cl01213 242619004086 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 242619004087 nucleotide binding site/active site [active] 242619004088 HIT family signature motif; other site 242619004089 catalytic residue [active] 242619004090 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 242619004091 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 242619004092 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 242619004093 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 242619004094 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 242619004095 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 242619004096 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 242619004097 Walker A/P-loop; other site 242619004098 ATP binding site [chemical binding]; other site 242619004099 Q-loop/lid; other site 242619004100 ABC transporter signature motif; other site 242619004101 Walker B; other site 242619004102 D-loop; other site 242619004103 H-loop/switch region; other site 242619004104 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 242619004105 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 242619004106 putative ATP binding site [chemical binding]; other site 242619004107 putative substrate interface [chemical binding]; other site 242619004108 YceG-like family; Region: YceG; pfam02618 242619004109 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 242619004110 dimerization interface [polypeptide binding]; other site 242619004111 DEAD-like helicases superfamily; Region: DEXDc; smart00487 242619004112 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 242619004113 ATP binding site [chemical binding]; other site 242619004114 putative Mg++ binding site [ion binding]; other site 242619004115 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 242619004116 Peptidase C26; Region: Peptidase_C26; pfam07722 242619004117 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 242619004118 catalytic triad [active] 242619004119 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 242619004120 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 242619004121 active site 242619004122 dimer interface [polypeptide binding]; other site 242619004123 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 242619004124 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 242619004125 ATP binding site [chemical binding]; other site 242619004126 Mg2+ binding site [ion binding]; other site 242619004127 G-X-G motif; other site 242619004128 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 242619004129 anchoring element; other site 242619004130 dimer interface [polypeptide binding]; other site 242619004131 ATP binding site [chemical binding]; other site 242619004132 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 242619004133 active site 242619004134 putative metal-binding site [ion binding]; other site 242619004135 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 242619004136 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 242619004137 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 242619004138 homodimer interface [polypeptide binding]; other site 242619004139 metal binding site [ion binding]; metal-binding site 242619004140 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 242619004141 homodimer interface [polypeptide binding]; other site 242619004142 active site 242619004143 putative chemical substrate binding site [chemical binding]; other site 242619004144 metal binding site [ion binding]; metal-binding site 242619004145 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 242619004146 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 242619004147 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 242619004148 Septum formation initiator; Region: DivIC; cl17659 242619004149 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 242619004150 Integrase core domain; Region: rve; pfam00665 242619004151 Integrase core domain; Region: rve_3; pfam13683 242619004152 alpha-1,2-mannosidase, putative; Region: aman2_put; TIGR01180 242619004153 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 242619004154 alpha-1,2-mannosidase, putative; Region: aman2_put; TIGR01180 242619004155 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 242619004156 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 242619004157 active site residue [active] 242619004158 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 242619004159 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 242619004160 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 242619004161 Cna protein B-type domain; Region: Cna_B_2; pfam13715 242619004162 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 242619004163 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 242619004164 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 242619004165 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 242619004166 Walker A/P-loop; other site 242619004167 ATP binding site [chemical binding]; other site 242619004168 Q-loop/lid; other site 242619004169 ABC transporter signature motif; other site 242619004170 Walker B; other site 242619004171 D-loop; other site 242619004172 H-loop/switch region; other site 242619004173 GH3 auxin-responsive promoter; Region: GH3; pfam03321 242619004174 ribonuclease R; Region: RNase_R; TIGR02063 242619004175 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 242619004176 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 242619004177 RNB domain; Region: RNB; pfam00773 242619004178 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 242619004179 RNA binding site [nucleotide binding]; other site 242619004180 Protein of unknown function (DUF1661); Region: DUF1661; pfam07877 242619004181 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 242619004182 UGMP family protein; Validated; Region: PRK09604 242619004183 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 242619004184 Competence-damaged protein; Region: CinA; pfam02464 242619004185 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 242619004186 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 242619004187 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 242619004188 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 242619004189 S1 domain; Region: S1_2; pfam13509 242619004190 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 242619004191 nucleoside/Zn binding site; other site 242619004192 dimer interface [polypeptide binding]; other site 242619004193 catalytic motif [active] 242619004194 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 242619004195 dimer interface [polypeptide binding]; other site 242619004196 catalytic triad [active] 242619004197 peroxidatic and resolving cysteines [active] 242619004198 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 242619004199 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 242619004200 S-adenosylmethionine binding site [chemical binding]; other site 242619004201 Dehydroquinase class II; Region: DHquinase_II; pfam01220 242619004202 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 242619004203 trimer interface [polypeptide binding]; other site 242619004204 active site 242619004205 dimer interface [polypeptide binding]; other site 242619004206 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 242619004207 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 242619004208 active site 242619004209 Int/Topo IB signature motif; other site 242619004210 Family of unknown function (DUF695); Region: DUF695; pfam05117 242619004211 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 242619004212 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_22; cd04681 242619004213 nudix motif; other site 242619004214 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 242619004215 active site 242619004216 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 242619004217 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 242619004218 Aspartase; Region: Aspartase; cd01357 242619004219 active sites [active] 242619004220 tetramer interface [polypeptide binding]; other site 242619004221 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 242619004222 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 242619004223 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 242619004224 Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK); Region: UMPK_like; cd02028 242619004225 active site 242619004226 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 242619004227 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 242619004228 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 242619004229 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 242619004230 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 242619004231 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 242619004232 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 242619004233 TPP-binding site [chemical binding]; other site 242619004234 dimer interface [polypeptide binding]; other site 242619004235 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 242619004236 PYR/PP interface [polypeptide binding]; other site 242619004237 dimer interface [polypeptide binding]; other site 242619004238 TPP binding site [chemical binding]; other site 242619004239 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 242619004240 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 242619004241 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 242619004242 sugar binding site [chemical binding]; other site 242619004243 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 242619004244 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 242619004245 cysteine desulfurase family protein; Region: am_tr_V_EF2568; TIGR01977 242619004246 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 242619004247 catalytic residue [active] 242619004248 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 242619004249 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 242619004250 selenophosphate synthetase; Provisional; Region: PRK00943 242619004251 dimerization interface [polypeptide binding]; other site 242619004252 putative ATP binding site [chemical binding]; other site 242619004253 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 242619004254 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 242619004255 Fructose-1.6-bisphosphate aldolase found in gram +/- bacteria; Region: FBP_aldolase_I_bact; cd00949 242619004256 putative active site [active] 242619004257 catalytic residue [active] 242619004258 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 242619004259 16S/18S rRNA binding site [nucleotide binding]; other site 242619004260 S13e-L30e interaction site [polypeptide binding]; other site 242619004261 25S rRNA binding site [nucleotide binding]; other site 242619004262 Metal binding protein ZntC. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: ZntC; cd01018 242619004263 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 242619004264 putative metal binding residues [ion binding]; other site 242619004265 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 242619004266 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 242619004267 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 242619004268 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 242619004269 Coenzyme A binding pocket [chemical binding]; other site 242619004270 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 242619004271 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 242619004272 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 242619004273 Protein export membrane protein; Region: SecD_SecF; pfam02355 242619004274 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 242619004275 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 242619004276 dimerization interface [polypeptide binding]; other site 242619004277 active site 242619004278 metal binding site [ion binding]; metal-binding site 242619004279 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 242619004280 dsRNA binding site [nucleotide binding]; other site 242619004281 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 242619004282 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 242619004283 dimer interface [polypeptide binding]; other site 242619004284 active site 242619004285 acyl carrier protein; Provisional; Region: acpP; PRK00982 242619004286 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 242619004287 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 242619004288 active site 242619004289 substrate binding site [chemical binding]; other site 242619004290 cosubstrate binding site; other site 242619004291 catalytic site [active] 242619004292 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 242619004293 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 242619004294 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 242619004295 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 242619004296 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 242619004297 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 242619004298 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 242619004299 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 242619004300 dimer interface [polypeptide binding]; other site 242619004301 motif 1; other site 242619004302 active site 242619004303 motif 2; other site 242619004304 motif 3; other site 242619004305 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 242619004306 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 242619004307 minor groove reading motif; other site 242619004308 helix-hairpin-helix signature motif; other site 242619004309 substrate binding pocket [chemical binding]; other site 242619004310 active site 242619004311 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 242619004312 PAP2_like_5 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_5; cd03394 242619004313 active site 242619004314 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 242619004315 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 242619004316 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 242619004317 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 242619004318 ATP binding site [chemical binding]; other site 242619004319 putative Mg++ binding site [ion binding]; other site 242619004320 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 242619004321 nucleotide binding region [chemical binding]; other site 242619004322 ATP-binding site [chemical binding]; other site 242619004323 TRCF domain; Region: TRCF; pfam03461 242619004324 GrpE; Region: GrpE; pfam01025 242619004325 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 242619004326 dimer interface [polypeptide binding]; other site 242619004327 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 242619004328 chaperone protein DnaJ; Provisional; Region: PRK14289 242619004329 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 242619004330 HSP70 interaction site [polypeptide binding]; other site 242619004331 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 242619004332 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 242619004333 dimer interface [polypeptide binding]; other site 242619004334 Domain of unknown function DUF59; Region: DUF59; cl00941 242619004335 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 242619004336 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 242619004337 putative active site [active] 242619004338 putative metal binding site [ion binding]; other site 242619004339 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 242619004340 putative ADP-ribose binding site [chemical binding]; other site 242619004341 putative active site [active] 242619004342 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 242619004343 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 242619004344 substrate-cofactor binding pocket; other site 242619004345 pyridoxal 5'-phosphate binding site [chemical binding]; other site 242619004346 catalytic residue [active] 242619004347 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 242619004348 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 242619004349 ATP-binding site [chemical binding]; other site 242619004350 Sugar specificity; other site 242619004351 Pyrimidine base specificity; other site 242619004352 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 242619004353 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 242619004354 active site 242619004355 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases and Helicobacter pylori peptidoglycan deacetylase (HpPgdA); Region: CE4_PuuE_HpPgdA_like_2; cd10941 242619004356 putative active site [active] 242619004357 putative catalytic site [active] 242619004358 Protein of unknown function (DUF3078); Region: DUF3078; pfam11276 242619004359 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 242619004360 active site 242619004361 ATP binding site [chemical binding]; other site 242619004362 substrate binding site [chemical binding]; other site 242619004363 activation loop (A-loop); other site 242619004364 Homologues of TraJ from Bacteroides conjugative transposon; Region: CtnDOT_TraJ; pfam07863 242619004365 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cl00298 242619004366 active site 242619004367 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 242619004368 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 242619004369 active site 242619004370 Zn binding site [ion binding]; other site 242619004371 Domain of unknown function (DUF3943); Region: DUF3943; pfam13084 242619004372 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 242619004373 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 242619004374 N-terminal Early set domain associated with the catalytic domain of eukaryotic glycogen branching enzyme (also called 1,4 alpha glucan branching enzyme); Region: E_set_GBE_euk_N; cd02854 242619004375 1,4-alpha-glucan branching enzyme [Carbohydrate transport and metabolism]; Region: GlgB; COG0296 242619004376 Alpha amylase catalytic domain found in bacterial and eukaryotic branching enzymes; Region: AmyAc_bac_euk_BE; cd11321 242619004377 active site 242619004378 catalytic site [active] 242619004379 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 242619004380 DNA polymerase I; Provisional; Region: PRK05755 242619004381 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 242619004382 active site 242619004383 metal binding site 1 [ion binding]; metal-binding site 242619004384 putative 5' ssDNA interaction site; other site 242619004385 metal binding site 3; metal-binding site 242619004386 metal binding site 2 [ion binding]; metal-binding site 242619004387 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 242619004388 putative DNA binding site [nucleotide binding]; other site 242619004389 putative metal binding site [ion binding]; other site 242619004390 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 242619004391 active site 242619004392 catalytic site [active] 242619004393 substrate binding site [chemical binding]; other site 242619004394 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 242619004395 active site 242619004396 DNA binding site [nucleotide binding] 242619004397 catalytic site [active] 242619004398 Tetratricopeptide repeat; Region: TPR_12; pfam13424 242619004399 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 242619004400 binding surface 242619004401 TPR motif; other site 242619004402 Tetratricopeptide repeat; Region: TPR_12; pfam13424 242619004403 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 242619004404 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 242619004405 dimer interface [polypeptide binding]; other site 242619004406 phosphorylation site [posttranslational modification] 242619004407 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 242619004408 ATP binding site [chemical binding]; other site 242619004409 Mg2+ binding site [ion binding]; other site 242619004410 G-X-G motif; other site 242619004411 Response regulator receiver domain; Region: Response_reg; pfam00072 242619004412 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 242619004413 active site 242619004414 phosphorylation site [posttranslational modification] 242619004415 intermolecular recognition site; other site 242619004416 dimerization interface [polypeptide binding]; other site 242619004417 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 242619004418 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 242619004419 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 242619004420 V-type ATP synthase subunit E; Provisional; Region: PRK01558 242619004421 Protein of unknown function (DUF2764); Region: DUF2764; pfam10962 242619004422 V-type ATP synthase subunit A; Provisional; Region: PRK04192 242619004423 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 242619004424 V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_A; cd01134 242619004425 Walker A motif/ATP binding site; other site 242619004426 Walker B motif; other site 242619004427 V-type ATP synthase subunit B; Provisional; Region: PRK02118 242619004428 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 242619004429 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_B; cd01135 242619004430 Walker A motif homologous position; other site 242619004431 Walker B motif; other site 242619004432 V-type ATP synthase subunit D; Provisional; Region: PRK02195 242619004433 V-type ATP synthase subunit I; Validated; Region: PRK05771 242619004434 V-type ATP synthase subunit K; Validated; Region: PRK06558 242619004435 ATP synthase subunit C; Region: ATP-synt_C; pfam00137 242619004436 ATP synthase subunit C; Region: ATP-synt_C; pfam00137 242619004437 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 242619004438 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 242619004439 Zn2+ binding site [ion binding]; other site 242619004440 Mg2+ binding site [ion binding]; other site 242619004441 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 242619004442 synthetase active site [active] 242619004443 NTP binding site [chemical binding]; other site 242619004444 metal binding site [ion binding]; metal-binding site 242619004445 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 242619004446 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 242619004447 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 242619004448 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 242619004449 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 242619004450 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 242619004451 TPP-binding site [chemical binding]; other site 242619004452 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 242619004453 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 242619004454 dimer interface [polypeptide binding]; other site 242619004455 PYR/PP interface [polypeptide binding]; other site 242619004456 TPP binding site [chemical binding]; other site 242619004457 substrate binding site [chemical binding]; other site 242619004458 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 242619004459 Ferredoxin [Energy production and conversion]; Region: COG1146 242619004460 DNA primase, catalytic core; Region: dnaG; TIGR01391 242619004461 CHC2 zinc finger; Region: zf-CHC2; pfam01807 242619004462 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 242619004463 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 242619004464 active site 242619004465 metal binding site [ion binding]; metal-binding site 242619004466 interdomain interaction site; other site 242619004467 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 242619004468 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 242619004469 Ligand binding site; other site 242619004470 oligomer interface; other site 242619004471 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 242619004472 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 242619004473 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 242619004474 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 242619004475 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 242619004476 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 242619004477 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 242619004478 enolase; Provisional; Region: eno; PRK00077 242619004479 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 242619004480 dimer interface [polypeptide binding]; other site 242619004481 metal binding site [ion binding]; metal-binding site 242619004482 substrate binding pocket [chemical binding]; other site 242619004483 Uncharacterized conserved protein [Function unknown]; Region: COG3339 242619004484 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 242619004485 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 242619004486 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 242619004487 DNA binding residues [nucleotide binding] 242619004488 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 242619004489 AMP-binding enzyme; Region: AMP-binding; pfam00501 242619004490 acyl-activating enzyme (AAE) consensus motif; other site 242619004491 putative AMP binding site [chemical binding]; other site 242619004492 putative active site [active] 242619004493 putative CoA binding site [chemical binding]; other site 242619004494 DEAD-like helicases superfamily; Region: DEXDc; smart00487 242619004495 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 242619004496 ATP binding site [chemical binding]; other site 242619004497 putative Mg++ binding site [ion binding]; other site 242619004498 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 242619004499 nucleotide binding region [chemical binding]; other site 242619004500 ATP-binding site [chemical binding]; other site 242619004501 Starch synthase catalytic domain; Region: Glyco_transf_5; pfam08323 242619004502 Domain of unknown function (DUF4270); Region: DUF4270; pfam14092 242619004503 nucleoside transporter; Region: 2A0110; TIGR00889 242619004504 Domain of unknown function (DUF2436); Region: DUF2436; pfam10365 242619004505 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 242619004506 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 242619004507 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 242619004508 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 242619004509 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 242619004510 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 242619004511 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 242619004512 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 242619004513 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 242619004514 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 242619004515 Predicted acetyltransferase involved in intracellular survival and related acetyltransferases [General function prediction only]; Region: Eis; COG4552 242619004516 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 242619004517 Coenzyme A binding pocket [chemical binding]; other site 242619004518 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 242619004519 homotrimer interaction site [polypeptide binding]; other site 242619004520 putative active site [active] 242619004521 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 242619004522 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 242619004523 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 242619004524 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 242619004525 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 242619004526 Walker A/P-loop; other site 242619004527 ATP binding site [chemical binding]; other site 242619004528 Q-loop/lid; other site 242619004529 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 242619004530 ABC transporter signature motif; other site 242619004531 Walker B; other site 242619004532 D-loop; other site 242619004533 H-loop/switch region; other site 242619004534 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 242619004535 Flavoprotein; Region: Flavoprotein; pfam02441 242619004536 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 242619004537 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 242619004538 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 242619004539 active site 242619004540 catalytic site [active] 242619004541 substrate binding site [chemical binding]; other site 242619004542 DNA polymerase III subunit beta; Validated; Region: PRK05643 242619004543 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 242619004544 putative DNA binding surface [nucleotide binding]; other site 242619004545 dimer interface [polypeptide binding]; other site 242619004546 beta-clamp/clamp loader binding surface; other site 242619004547 beta-clamp/translesion DNA polymerase binding surface; other site 242619004548 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 242619004549 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 242619004550 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 242619004551 C-terminal peptidase (prc); Region: prc; TIGR00225 242619004552 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 242619004553 protein binding site [polypeptide binding]; other site 242619004554 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 242619004555 Catalytic dyad [active] 242619004556 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 242619004557 catalytic motif [active] 242619004558 Zn binding site [ion binding]; other site 242619004559 Protein of unknown function (DUF2023); Region: DUF2023; pfam09633 242619004560 flavodoxin FldA; Validated; Region: PRK09267 242619004561 glycerate kinase; Region: TIGR00045 242619004562 AAA domain; Region: AAA_14; pfam13173 242619004563 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 242619004564 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 242619004565 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 242619004566 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 242619004567 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 242619004568 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 242619004569 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 242619004570 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 242619004571 G1 box; other site 242619004572 GTP/Mg2+ binding site [chemical binding]; other site 242619004573 G2 box; other site 242619004574 Switch I region; other site 242619004575 G3 box; other site 242619004576 Switch II region; other site 242619004577 TIR domain; Region: TIR_2; pfam13676 242619004578 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1755 242619004579 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 242619004580 S-adenosylmethionine binding site [chemical binding]; other site 242619004581 urocanate hydratase; Provisional; Region: PRK05414 242619004582 hypothetical protein; Reviewed; Region: PRK12497 242619004583 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 242619004584 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 242619004585 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 242619004586 putative acyl-acceptor binding pocket; other site 242619004587 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 242619004588 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 242619004589 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 242619004590 active site 242619004591 HIGH motif; other site 242619004592 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 242619004593 KMSKS motif; other site 242619004594 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 242619004595 tRNA binding surface [nucleotide binding]; other site 242619004596 anticodon binding site; other site 242619004597 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 242619004598 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 242619004599 active site 242619004600 nucleophile elbow; other site 242619004601 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 242619004602 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 242619004603 active site 242619004604 Alpha-L-fucosidase; Region: Alpha_L_fucos; smart00812 242619004605 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 242619004606 polyphosphate kinase; Provisional; Region: PRK05443 242619004607 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 242619004608 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 242619004609 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 242619004610 domain interface [polypeptide binding]; other site 242619004611 active site 242619004612 catalytic site [active] 242619004613 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 242619004614 domain interface [polypeptide binding]; other site 242619004615 active site 242619004616 catalytic site [active] 242619004617 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 242619004618 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 242619004619 HflX GTPase family; Region: HflX; cd01878 242619004620 G1 box; other site 242619004621 GTP/Mg2+ binding site [chemical binding]; other site 242619004622 Switch I region; other site 242619004623 G2 box; other site 242619004624 G3 box; other site 242619004625 Switch II region; other site 242619004626 G4 box; other site 242619004627 G5 box; other site 242619004628 tRNA 2-selenouridine synthase; Region: tRNA_sel_U_synt; TIGR03167 242619004629 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 242619004630 active site residue [active] 242619004631 SirA-like protein; Region: SirA; pfam01206 242619004632 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 242619004633 DsrE/DsrF-like family; Region: DrsE; pfam02635 242619004634 aconitate hydratase, putative, Aquifex type; Region: acon_putative; TIGR01342 242619004635 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 242619004636 TPR motif; other site 242619004637 binding surface 242619004638 S-adenosylmethionine synthetase; Validated; Region: PRK05250 242619004639 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 242619004640 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 242619004641 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 242619004642 Thiamine pyrophosphokinase; Region: TPK; cd07995 242619004643 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 242619004644 active site 242619004645 dimerization interface [polypeptide binding]; other site 242619004646 thiamine binding site [chemical binding]; other site 242619004647 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 242619004648 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 242619004649 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 242619004650 GTPase RsgA; Reviewed; Region: PRK00098 242619004651 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 242619004652 RNA binding site [nucleotide binding]; other site 242619004653 homodimer interface [polypeptide binding]; other site 242619004654 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 242619004655 GTPase/Zn-binding domain interface [polypeptide binding]; other site 242619004656 GTP/Mg2+ binding site [chemical binding]; other site 242619004657 G4 box; other site 242619004658 G5 box; other site 242619004659 G1 box; other site 242619004660 Switch I region; other site 242619004661 G2 box; other site 242619004662 G3 box; other site 242619004663 Switch II region; other site 242619004664 ribosome recycling factor; Reviewed; Region: frr; PRK00083 242619004665 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 242619004666 hinge region; other site 242619004667 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 242619004668 putative nucleotide binding site [chemical binding]; other site 242619004669 uridine monophosphate binding site [chemical binding]; other site 242619004670 homohexameric interface [polypeptide binding]; other site 242619004671 Protein of unknown function (DUF1661); Region: DUF1661; pfam07877 242619004672 Transposase domain (DUF772); Region: DUF772; pfam05598 242619004673 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 242619004674 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 242619004675 GLPGLI family protein; Region: GLPGLI; TIGR01200 242619004676 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 242619004677 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 242619004678 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 242619004679 alphaNTD - beta interaction site [polypeptide binding]; other site 242619004680 alphaNTD homodimer interface [polypeptide binding]; other site 242619004681 alphaNTD - beta' interaction site [polypeptide binding]; other site 242619004682 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 242619004683 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 242619004684 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 242619004685 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 242619004686 RNA binding surface [nucleotide binding]; other site 242619004687 30S ribosomal protein S11; Validated; Region: PRK05309 242619004688 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 242619004689 30S ribosomal protein S13; Region: bact_S13; TIGR03631 242619004690 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 242619004691 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 242619004692 rRNA binding site [nucleotide binding]; other site 242619004693 predicted 30S ribosome binding site; other site 242619004694 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 242619004695 active site 242619004696 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 242619004697 SecY translocase; Region: SecY; pfam00344 242619004698 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 242619004699 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 242619004700 23S rRNA binding site [nucleotide binding]; other site 242619004701 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 242619004702 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 242619004703 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 242619004704 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 242619004705 5S rRNA interface [nucleotide binding]; other site 242619004706 L27 interface [polypeptide binding]; other site 242619004707 23S rRNA interface [nucleotide binding]; other site 242619004708 L5 interface [polypeptide binding]; other site 242619004709 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 242619004710 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 242619004711 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 242619004712 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 242619004713 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 242619004714 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 242619004715 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 242619004716 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 242619004717 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 242619004718 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 242619004719 RNA binding site [nucleotide binding]; other site 242619004720 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 242619004721 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 242619004722 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 242619004723 23S rRNA interface [nucleotide binding]; other site 242619004724 putative translocon interaction site; other site 242619004725 signal recognition particle (SRP54) interaction site; other site 242619004726 L23 interface [polypeptide binding]; other site 242619004727 trigger factor interaction site; other site 242619004728 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 242619004729 23S rRNA interface [nucleotide binding]; other site 242619004730 5S rRNA interface [nucleotide binding]; other site 242619004731 putative antibiotic binding site [chemical binding]; other site 242619004732 L25 interface [polypeptide binding]; other site 242619004733 L27 interface [polypeptide binding]; other site 242619004734 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 242619004735 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 242619004736 G-X-X-G motif; other site 242619004737 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 242619004738 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 242619004739 putative translocon binding site; other site 242619004740 protein-rRNA interface [nucleotide binding]; other site 242619004741 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 242619004742 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 242619004743 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 242619004744 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 242619004745 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 242619004746 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 242619004747 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 242619004748 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 242619004749 elongation factor G; Reviewed; Region: PRK12739 242619004750 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 242619004751 G1 box; other site 242619004752 putative GEF interaction site [polypeptide binding]; other site 242619004753 GTP/Mg2+ binding site [chemical binding]; other site 242619004754 Switch I region; other site 242619004755 G2 box; other site 242619004756 G3 box; other site 242619004757 Switch II region; other site 242619004758 G4 box; other site 242619004759 G5 box; other site 242619004760 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 242619004761 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 242619004762 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 242619004763 30S ribosomal protein S7; Validated; Region: PRK05302 242619004764 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 242619004765 S17 interaction site [polypeptide binding]; other site 242619004766 S8 interaction site; other site 242619004767 16S rRNA interaction site [nucleotide binding]; other site 242619004768 streptomycin interaction site [chemical binding]; other site 242619004769 23S rRNA interaction site [nucleotide binding]; other site 242619004770 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 242619004771 Protein of unknown function (DUF3667); Region: DUF3667; pfam12412 242619004772 5-enolpyruvylshikimate-3-phosphate synthase [Amino acid transport and metabolism]; Region: AroA; COG0128 242619004773 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 242619004774 putative active site [active] 242619004775 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 242619004776 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 242619004777 ABC-ATPase subunit interface; other site 242619004778 dimer interface [polypeptide binding]; other site 242619004779 putative PBP binding regions; other site 242619004780 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 242619004781 binding surface 242619004782 Tetratricopeptide repeat; Region: TPR_16; pfam13432 242619004783 TPR motif; other site 242619004784 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 242619004785 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 242619004786 Malate/lactate dehydrogenases [Energy production and conversion]; Region: Mdh; COG0039 242619004787 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 242619004788 NAD(P) binding site [chemical binding]; other site 242619004789 LDH/MDH dimer interface [polypeptide binding]; other site 242619004790 substrate binding site [chemical binding]; other site 242619004791 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 242619004792 Domain of unknown function DUF20; Region: UPF0118; pfam01594 242619004793 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 242619004794 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 242619004795 active site 242619004796 HIGH motif; other site 242619004797 nucleotide binding site [chemical binding]; other site 242619004798 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 242619004799 KMSKS motif; other site 242619004800 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 242619004801 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 242619004802 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 242619004803 Uncharacterized conserved protein [Function unknown]; Region: COG1284 242619004804 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 242619004805 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 242619004806 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 242619004807 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 242619004808 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 242619004809 NAD(P) binding site [chemical binding]; other site 242619004810 active site 242619004811 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 242619004812 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 242619004813 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 242619004814 ribosomal protein L33; Region: rpl33; CHL00104 242619004815 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 242619004816 Phosphate transporter family; Region: PHO4; cl00396 242619004817 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; cl00454 242619004818 TM-ABC transporter signature motif; other site 242619004819 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 242619004820 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 242619004821 Bacterial sugar transferase; Region: Bac_transf; pfam02397 242619004822 Mechanosensitive ion channel; Region: MS_channel; pfam00924 242619004823 TPR repeat; Region: TPR_11; pfam13414 242619004824 TPR repeat; Region: TPR_11; pfam13414 242619004825 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 242619004826 binding surface 242619004827 TPR motif; other site 242619004828 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 242619004829 binding surface 242619004830 TPR motif; other site 242619004831 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 242619004832 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 242619004833 Protein of unknown function (DUF1661); Region: DUF1661; pfam07877 242619004834 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 242619004835 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 242619004836 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 242619004837 putative active site [active] 242619004838 putative NTP binding site [chemical binding]; other site 242619004839 putative nucleic acid binding site [nucleotide binding]; other site 242619004840 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cd09634 242619004841 CRISPR/Cas system-associated RAMP superfamily protein Cmr6; Region: Cmr6_III-B; cd09661 242619004842 CRISPR/Cas system-associated RAMP superfamily protein Cmr4; Region: Cmr4_III-B; cd09682 242619004843 CRISPR-associated protein (Cas_Cmr3); Region: Cas_Cmr3; pfam09700 242619004844 CRISPR/Cas system-associated RAMP superfamily protein Cmr3; Region: Cmr3_III-B; cd09656 242619004845 CRISPR-associated protein Cas10/Cmr2, subtype III-B; Region: cas_TM1794_Cmr2; TIGR02577 242619004846 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cd09679 242619004847 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 242619004848 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 242619004849 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 242619004850 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 242619004851 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 242619004852 GIY-YIG motif/motif A; other site 242619004853 active site 242619004854 catalytic site [active] 242619004855 putative DNA binding site [nucleotide binding]; other site 242619004856 metal binding site [ion binding]; metal-binding site 242619004857 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 242619004858 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 242619004859 putative active site [active] 242619004860 dimerization interface [polypeptide binding]; other site 242619004861 putative tRNAtyr binding site [nucleotide binding]; other site 242619004862 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain putative pyrophosphatase YpjD from Bacillus subtilis and its bacterial homologs; Region: NTP-PPase_BsYpjD; cd11531 242619004863 homodimer interface [polypeptide binding]; other site 242619004864 metal binding site [ion binding]; metal-binding site 242619004865 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 242619004866 intersubunit interface [polypeptide binding]; other site 242619004867 active site 242619004868 catalytic residue [active] 242619004869 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 242619004870 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 242619004871 substrate binding pocket [chemical binding]; other site 242619004872 chain length determination region; other site 242619004873 substrate-Mg2+ binding site; other site 242619004874 catalytic residues [active] 242619004875 aspartate-rich region 1; other site 242619004876 active site lid residues [active] 242619004877 aspartate-rich region 2; other site 242619004878 WbqC-like protein family; Region: WbqC; pfam08889 242619004879 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 242619004880 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 242619004881 Catalytic site [active] 242619004882 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 242619004883 Signal peptidase I [Intracellular trafficking and secretion]; Region: LepB; COG0681 242619004884 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 242619004885 Catalytic site [active] 242619004886 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 242619004887 dihydrodipicolinate reductase; Provisional; Region: PRK00048 242619004888 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 242619004889 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 242619004890 deoxyguanosinetriphosphate triphosphohydrolase, putative; Region: dGTP_triPase; TIGR01353 242619004891 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 242619004892 Predicted membrane protein [Function unknown]; Region: COG2855 242619004893 Cna protein B-type domain; Region: Cna_B_2; pfam13715 242619004894 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 242619004895 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 242619004896 N-terminal plug; other site 242619004897 ligand-binding site [chemical binding]; other site 242619004898 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 242619004899 Recombination protein O N terminal; Region: RecO_N; pfam11967 242619004900 Recombination protein O C terminal; Region: RecO_C; pfam02565 242619004901 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 242619004902 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 242619004903 active site 242619004904 substrate binding site [chemical binding]; other site 242619004905 metal binding site [ion binding]; metal-binding site 242619004906 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 242619004907 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-B; cd09722 242619004908 Domain of unknown function DUF83; Region: Cas_Cas4; pfam01930 242619004909 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 242619004910 CRISPR/Cas system-associated protein Cas3; Region: Cas3_I; cd09639 242619004911 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 242619004912 CRISPR-associated autoregulator DevR family; Region: cas_MJ0381; TIGR01875 242619004913 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I; cd09717 242619004914 CRISPR/Cas system-associated protein Cas8c; Region: Csp2_I-U; cd09715 242619004915 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cd09716 242619004916 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09652 242619004917 Sulfatase; Region: Sulfatase; pfam00884 242619004918 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 242619004919 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 242619004920 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 242619004921 putative active site [active] 242619004922 substrate binding site [chemical binding]; other site 242619004923 putative cosubstrate binding site; other site 242619004924 catalytic site [active] 242619004925 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 242619004926 substrate binding site [chemical binding]; other site 242619004927 Propeptide_C25; Region: Propeptide_C25; pfam08126 242619004928 gingipain subgroup of the Peptidase C25 family N-terminal domain; Region: Peptidase_C25_N_gingipain; cd10913 242619004929 active site 242619004930 Peptidase family C25, C terminal ig-like domain; Region: Peptidase_C25_C; pfam03785 242619004931 Domain of unknown function (DUF2436); Region: DUF2436; pfam10365 242619004932 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 242619004933 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 242619004934 Domain of unknown function (DUF2436); Region: DUF2436; pfam10365 242619004935 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 242619004936 catalytic core [active] 242619004937 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 242619004938 putative deacylase active site [active] 242619004939 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 242619004940 active site 242619004941 Domain of unknown function (DUF4294); Region: DUF4294; pfam14127 242619004942 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 242619004943 putative hydrophobic ligand binding site [chemical binding]; other site 242619004944 primosome assembly protein PriA; Validated; Region: PRK05580 242619004945 putative oxidoreductase; Provisional; Region: PRK12831 242619004946 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 242619004947 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 242619004948 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 242619004949 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 242619004950 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 242619004951 FAD binding pocket [chemical binding]; other site 242619004952 FAD binding motif [chemical binding]; other site 242619004953 phosphate binding motif [ion binding]; other site 242619004954 beta-alpha-beta structure motif; other site 242619004955 NAD binding pocket [chemical binding]; other site 242619004956 Iron coordination center [ion binding]; other site 242619004957 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 242619004958 Ion transport protein; Region: Ion_trans; pfam00520 242619004959 Ion channel; Region: Ion_trans_2; pfam07885 242619004960 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 242619004961 substrate binding site [chemical binding]; other site 242619004962 amidase catalytic site [active] 242619004963 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 242619004964 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 242619004965 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 242619004966 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 242619004967 catalytic residues [active] 242619004968 Uncharacterized conserved protein [Function unknown]; Region: COG0327 242619004969 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 242619004970 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 242619004971 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 242619004972 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 242619004973 Putative zinc ribbon domain; Region: DUF164; pfam02591 242619004974 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 242619004975 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 242619004976 Ligand Binding Site [chemical binding]; other site 242619004977 TilS substrate C-terminal domain; Region: TilS_C; smart00977 242619004978 PIF1-like helicase; Region: PIF1; pfam05970 242619004979 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 242619004980 Walker A motif; other site 242619004981 ATP binding site [chemical binding]; other site 242619004982 Walker B motif; other site 242619004983 Family description; Region: UvrD_C_2; pfam13538 242619004984 Dehydratase family; Region: ILVD_EDD; cl00340 242619004985 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 242619004986 dihydrodipicolinate synthase; Region: dapA; TIGR00674 242619004987 dimer interface [polypeptide binding]; other site 242619004988 active site 242619004989 catalytic residue [active] 242619004990 AAA domain; Region: AAA_26; pfam13500 242619004991 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 242619004992 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 242619004993 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 242619004994 ligand binding site [chemical binding]; other site 242619004995 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK07565 242619004996 Dihydroorotate dehydrogenase (DHOD) like proteins. 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...; Region: DHOD_like; cd04739 242619004997 putative active site [active] 242619004998 putative FMN binding site [chemical binding]; other site 242619004999 putative substrate binding site [chemical binding]; other site 242619005000 putative transposase OrfB; Reviewed; Region: PHA02517 242619005001 Integrase core domain; Region: rve; pfam00665 242619005002 Integrase core domain; Region: rve_3; pfam13683 242619005003 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 242619005004 thymidylate synthase; Reviewed; Region: thyA; PRK01827 242619005005 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 242619005006 dimerization interface [polypeptide binding]; other site 242619005007 active site 242619005008 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 242619005009 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 242619005010 folate binding site [chemical binding]; other site 242619005011 NADP+ binding site [chemical binding]; other site 242619005012 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 242619005013 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 242619005014 dimer interface [polypeptide binding]; other site 242619005015 motif 1; other site 242619005016 active site 242619005017 motif 2; other site 242619005018 motif 3; other site 242619005019 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 242619005020 anticodon binding site; other site 242619005021 Protein of unknown function (DUF1661); Region: DUF1661; pfam07877 242619005022 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14466 242619005023 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 242619005024 FeS/SAM binding site; other site 242619005025 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 242619005026 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 242619005027 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 242619005028 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 242619005029 active site 242619005030 nucleotide binding site [chemical binding]; other site 242619005031 HIGH motif; other site 242619005032 KMSKS motif; other site 242619005033 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 242619005034 classical (c) SDRs; Region: SDR_c; cd05233 242619005035 NAD(P) binding site [chemical binding]; other site 242619005036 active site 242619005037 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 242619005038 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 242619005039 putative acyl-acceptor binding pocket; other site 242619005040 putative recombination protein RecB; Provisional; Region: PRK13909 242619005041 Family description; Region: UvrD_C_2; pfam13538 242619005042 Archaeal ATPase; Region: Arch_ATPase; pfam01637 242619005043 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 242619005044 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06173 242619005045 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 242619005046 inhibitor-cofactor binding pocket; inhibition site 242619005047 pyridoxal 5'-phosphate binding site [chemical binding]; other site 242619005048 catalytic residue [active] 242619005049 biotin synthase; Region: bioB; TIGR00433 242619005050 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 242619005051 FeS/SAM binding site; other site 242619005052 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 242619005053 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 242619005054 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 242619005055 putative substrate translocation pore; other site 242619005056 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 242619005057 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 242619005058 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 242619005059 active site 242619005060 HIGH motif; other site 242619005061 dimer interface [polypeptide binding]; other site 242619005062 KMSKS motif; other site 242619005063 Domain of unknown function (DUF3127); Region: DUF3127; pfam11325 242619005064 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 242619005065 methionine sulfoxide reductase A; Provisional; Region: PRK14054 242619005066 methionine sulfoxide reductase B; Provisional; Region: PRK00222 242619005067 SelR domain; Region: SelR; pfam01641 242619005068 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 242619005069 Cation efflux family; Region: Cation_efflux; pfam01545 242619005070 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 242619005071 homooctamer interface [polypeptide binding]; other site 242619005072 active site 242619005073 Family of unknown function (DUF490); Region: DUF490; pfam04357 242619005074 Surface antigen; Region: Bac_surface_Ag; pfam01103 242619005075 Family of unknown function (DUF490); Region: DUF490; pfam04357 242619005076 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 242619005077 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 242619005078 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 242619005079 active site 242619005080 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 242619005081 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 242619005082 ATP binding site [chemical binding]; other site 242619005083 Mg++ binding site [ion binding]; other site 242619005084 motif III; other site 242619005085 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 242619005086 nucleotide binding region [chemical binding]; other site 242619005087 ATP-binding site [chemical binding]; other site 242619005088 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 242619005089 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 242619005090 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 242619005091 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 242619005092 thiazole biosynthesis protein ThiH; Region: thiH; TIGR02351 242619005093 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 242619005094 FeS/SAM binding site; other site 242619005095 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 242619005096 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 242619005097 ThiS interaction site; other site 242619005098 putative active site [active] 242619005099 tetramer interface [polypeptide binding]; other site 242619005100 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 242619005101 thiamine phosphate binding site [chemical binding]; other site 242619005102 active site 242619005103 pyrophosphate binding site [ion binding]; other site 242619005104 HMP-P kinase/thiamin-monophosphate pyrophosphorylase; Region: PLN02898 242619005105 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 242619005106 substrate binding site [chemical binding]; other site 242619005107 dimer interface [polypeptide binding]; other site 242619005108 ATP binding site [chemical binding]; other site 242619005109 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 242619005110 thiamine phosphate binding site [chemical binding]; other site 242619005111 active site 242619005112 pyrophosphate binding site [ion binding]; other site 242619005113 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 242619005114 ThiC-associated domain; Region: ThiC-associated; pfam13667 242619005115 ThiC family; Region: ThiC; pfam01964 242619005116 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 242619005117 thiS-thiF/thiG interaction site; other site 242619005118 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 242619005119 30S ribosomal protein S16; Provisional; Region: rpsP; PRK14521 242619005120 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 242619005121 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 242619005122 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 242619005123 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 242619005124 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 242619005125 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 242619005126 active site 242619005127 homodimer interface [polypeptide binding]; other site 242619005128 glyceraldehyde-3-phosphate dehydrogenase; Provisional; Region: PTZ00023 242619005129 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 242619005130 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 242619005131 Helix-turn-helix domain; Region: HTH_18; pfam12833 242619005132 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 242619005133 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 242619005134 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 242619005135 catalytic residue [active] 242619005136 putative transposase OrfB; Reviewed; Region: PHA02517 242619005137 Integrase core domain; Region: rve; pfam00665 242619005138 Integrase core domain; Region: rve_3; pfam13683 242619005139 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 242619005140 Protein of unknown function (DUF3575); Region: DUF3575; pfam12099 242619005141 Domain of unknown function, B. Theta Gene description (DUF3868); Region: DUF3868; pfam12984 242619005142 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 242619005143 ligand binding site [chemical binding]; other site 242619005144 Major fimbrial subunit protein (FimA); Region: P_gingi_FimA; pfam06321 242619005145 Fimbrillin-A associated anchor proteins Mfa1 and Mfa2; Region: Mfa2; pfam08842 242619005146 Major fimbrial subunit protein (FimA); Region: P_gingi_FimA; pfam06321 242619005147 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 242619005148 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 242619005149 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 242619005150 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 242619005151 dimer interface [polypeptide binding]; other site 242619005152 active site 242619005153 CoA binding pocket [chemical binding]; other site 242619005154 GTPase Era; Reviewed; Region: era; PRK00089 242619005155 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 242619005156 G1 box; other site 242619005157 GTP/Mg2+ binding site [chemical binding]; other site 242619005158 Switch I region; other site 242619005159 G2 box; other site 242619005160 Switch II region; other site 242619005161 G3 box; other site 242619005162 G4 box; other site 242619005163 G5 box; other site 242619005164 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; cl00098 242619005165 GTP-binding protein Der; Reviewed; Region: PRK00093 242619005166 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 242619005167 G1 box; other site 242619005168 GTP/Mg2+ binding site [chemical binding]; other site 242619005169 Switch I region; other site 242619005170 G2 box; other site 242619005171 Switch II region; other site 242619005172 G3 box; other site 242619005173 G4 box; other site 242619005174 G5 box; other site 242619005175 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 242619005176 G1 box; other site 242619005177 GTP/Mg2+ binding site [chemical binding]; other site 242619005178 Switch I region; other site 242619005179 G2 box; other site 242619005180 G3 box; other site 242619005181 Switch II region; other site 242619005182 G4 box; other site 242619005183 G5 box; other site 242619005184 Protein of unknown function (DUF2723); Region: DUF2723; pfam11028 242619005185 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 242619005186 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 242619005187 NodB motif; other site 242619005188 active site 242619005189 catalytic site [active] 242619005190 metal binding site [ion binding]; metal-binding site 242619005191 S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_30; cl17711 242619005192 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 242619005193 active site 242619005194 xanthine permease; Region: pbuX; TIGR03173 242619005195 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 242619005196 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 242619005197 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 242619005198 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 242619005199 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 242619005200 ligand binding site [chemical binding]; other site 242619005201 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 242619005202 TraB family; Region: TraB; pfam01963 242619005203 RNA methyltransferase, RsmE family; Region: TIGR00046 242619005204 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 242619005205 M28 Zn-Peptidases; Region: M28_like_6; cd08656 242619005206 Peptidase family M28; Region: Peptidase_M28; pfam04389 242619005207 metal binding site [ion binding]; metal-binding site 242619005208 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 242619005209 protoporphyrinogen oxidase; Region: proto_IX_ox; TIGR00562 242619005210 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 242619005211 Helix-turn-helix domain; Region: HTH_18; pfam12833 242619005212 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 242619005213 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 242619005214 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 242619005215 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 242619005216 glycyl-tRNA synthetase; Provisional; Region: PRK04173 242619005217 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 242619005218 motif 1; other site 242619005219 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 242619005220 active site 242619005221 motif 2; other site 242619005222 motif 3; other site 242619005223 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 242619005224 anticodon binding site; other site 242619005225 Domain of unknown function, B. Theta Gene description (DUF3868); Region: DUF3868; pfam12984 242619005226 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 242619005227 ligand binding site [chemical binding]; other site 242619005228 Protein of unknown function (DUF3575); Region: DUF3575; pfam12099 242619005229 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 242619005230 L-fucose transporter; Provisional; Region: PRK10133; cl17665 242619005231 Putative D-isomer specific 2-hydroxyacid dehydrogenases, NAD-binding and catalytic domains; Region: 2-Hacid_dh_13; cd12178 242619005232 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 242619005233 putative ligand binding site [chemical binding]; other site 242619005234 putative NAD binding site [chemical binding]; other site 242619005235 catalytic site [active] 242619005236 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 242619005237 Outer membrane protein Omp28; Region: Omp28; pfam11551 242619005238 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 242619005239 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 242619005240 catalytic residues [active] 242619005241 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 242619005242 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 242619005243 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 242619005244 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 242619005245 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 242619005246 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 242619005247 catalytic loop [active] 242619005248 iron binding site [ion binding]; other site 242619005249 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 242619005250 FAD binding pocket [chemical binding]; other site 242619005251 FAD binding motif [chemical binding]; other site 242619005252 phosphate binding motif [ion binding]; other site 242619005253 beta-alpha-beta structure motif; other site 242619005254 NAD binding pocket [chemical binding]; other site 242619005255 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 242619005256 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 242619005257 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 242619005258 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 242619005259 NADH:ubiquinone oxidoreductase, Na(+)-translocating, B subunit; Region: nqrB; TIGR01937 242619005260 NADH:ubiquinone oxidoreductase, Na(+)-translocating, A subunit; Region: nqrA; TIGR01936 242619005261 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 242619005262 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 242619005263 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 242619005264 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 242619005265 Penicillinase repressor; Region: Pencillinase_R; pfam03965 242619005266 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 242619005267 UbiA prenyltransferase family; Region: UbiA; pfam01040 242619005268 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 242619005269 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 242619005270 active site 242619005271 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 242619005272 substrate binding site [chemical binding]; other site 242619005273 catalytic residues [active] 242619005274 dimer interface [polypeptide binding]; other site 242619005275 aspartate kinase III; Validated; Region: PRK09084 242619005276 AAK_AK-HSDH-like: Amino Acid Kinase Superfamily (AAK), AK-HSDH-like; this family includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK- homoserine dehydrogenase (HSDH). These aspartokinases are found in such...; Region: AAK_AK-HSDH-like; cd04243 242619005277 putative catalytic residues [active] 242619005278 nucleotide binding site [chemical binding]; other site 242619005279 aspartate binding site [chemical binding]; other site 242619005280 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC-like_1; cd04912 242619005281 dimer interface [polypeptide binding]; other site 242619005282 allosteric regulatory binding pocket; other site 242619005283 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 242619005284 dimer interface [polypeptide binding]; other site 242619005285 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 242619005286 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 242619005287 Walker A/P-loop; other site 242619005288 ATP binding site [chemical binding]; other site 242619005289 Q-loop/lid; other site 242619005290 ABC transporter signature motif; other site 242619005291 Walker B; other site 242619005292 D-loop; other site 242619005293 H-loop/switch region; other site 242619005294 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 242619005295 Peptidase family M23; Region: Peptidase_M23; pfam01551 242619005296 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 242619005297 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 242619005298 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 242619005299 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 242619005300 Peptidase family M48; Region: Peptidase_M48; pfam01435 242619005301 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 242619005302 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 242619005303 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 242619005304 ABC transporter; Region: ABC_tran_2; pfam12848 242619005305 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 242619005306 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 242619005307 TPR motif; other site 242619005308 binding surface 242619005309 TPR repeat; Region: TPR_11; pfam13414 242619005310 TPR repeat; Region: TPR_11; pfam13414 242619005311 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 242619005312 TPR motif; other site 242619005313 binding surface 242619005314 Tetratricopeptide repeat; Region: TPR_9; pfam13371 242619005315 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 242619005316 binding surface 242619005317 TPR motif; other site 242619005318 TPR repeat; Region: TPR_11; pfam13414 242619005319 TPR repeat; Region: TPR_11; pfam13414 242619005320 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 242619005321 binding surface 242619005322 TPR motif; other site 242619005323 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 242619005324 TPR motif; other site 242619005325 Tetratricopeptide repeat; Region: TPR_12; pfam13424 242619005326 binding surface 242619005327 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 242619005328 active site 242619005329 catalytic residues [active] 242619005330 metal binding site [ion binding]; metal-binding site 242619005331 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 242619005332 MG2 domain; Region: A2M_N; pfam01835 242619005333 Alpha-2-macroglobulin family; Region: A2M; pfam00207 242619005334 2-dehydropantoate 2-reductase; Region: apbA_panE; TIGR00745 242619005335 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 242619005336 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 242619005337 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 242619005338 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 242619005339 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 242619005340 ABC transporter; Region: ABC_tran_2; pfam12848 242619005341 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 242619005342 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 242619005343 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 242619005344 NAD(P) binding site [chemical binding]; other site 242619005345 active site 242619005346 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 242619005347 active site 242619005348 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 242619005349 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 242619005350 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 242619005351 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 242619005352 Walker A/P-loop; other site 242619005353 ATP binding site [chemical binding]; other site 242619005354 Q-loop/lid; other site 242619005355 ABC transporter signature motif; other site 242619005356 Walker B; other site 242619005357 D-loop; other site 242619005358 H-loop/switch region; other site 242619005359 Protein of unknown function (DUF1661); Region: DUF1661; pfam07877 242619005360 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 242619005361 Protein of unknown function (DUF2851); Region: DUF2851; pfam11013 242619005362 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 242619005363 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 242619005364 Substrate binding site; other site 242619005365 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 242619005366 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 242619005367 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 242619005368 TPP-binding site; other site 242619005369 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 242619005370 PYR/PP interface [polypeptide binding]; other site 242619005371 dimer interface [polypeptide binding]; other site 242619005372 TPP binding site [chemical binding]; other site 242619005373 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 242619005374 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 242619005375 TrkA-N domain; Region: TrkA_N; pfam02254 242619005376 TrkA-C domain; Region: TrkA_C; pfam02080 242619005377 TrkA-N domain; Region: TrkA_N; pfam02254 242619005378 TrkA-C domain; Region: TrkA_C; pfam02080 242619005379 Cation transport protein; Region: TrkH; cl17365 242619005380 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 242619005381 Homologues of TraJ from Bacteroides conjugative transposon; Region: CtnDOT_TraJ; pfam07863 242619005382 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 242619005383 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 242619005384 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 242619005385 FeS/SAM binding site; other site 242619005386 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 242619005387 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 242619005388 putative acyl-acceptor binding pocket; other site 242619005389 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 242619005390 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 242619005391 Probable Catalytic site; other site 242619005392 metal-binding site 242619005393 Transcriptional regulators [Transcription]; Region: MarR; COG1846 242619005394 Winged helix DNA-binding domain; Region: HTH_34; pfam13601 242619005395 Cna protein B-type domain; Region: Cna_B_2; pfam13715 242619005396 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 242619005397 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629