-- dump date 20140619_235212 -- class Genbank::misc_feature -- table misc_feature_note -- id note 431947000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 431947000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 431947000003 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 431947000004 Walker A motif; other site 431947000005 ATP binding site [chemical binding]; other site 431947000006 Walker B motif; other site 431947000007 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 431947000008 DnaA box-binding interface [nucleotide binding]; other site 431947000009 putative trimer interface [polypeptide binding]; other site 431947000010 Bacterial transferase hexapeptide (six repeats); Region: Hexapep; pfam00132 431947000011 putative CoA binding site [chemical binding]; other site 431947000012 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 431947000013 putative trimer interface [polypeptide binding]; other site 431947000014 putative active site [active] 431947000015 putative substrate binding site [chemical binding]; other site 431947000016 putative CoA binding site [chemical binding]; other site 431947000017 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 431947000018 Acyltransferase family; Region: Acyl_transf_3; pfam01757 431947000019 NAD-dependent deacetylase; Provisional; Region: PRK00481 431947000020 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 431947000021 NAD+ binding site [chemical binding]; other site 431947000022 substrate binding site [chemical binding]; other site 431947000023 Zn binding site [ion binding]; other site 431947000024 phosphodiesterase YaeI; Provisional; Region: PRK11340 431947000025 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 431947000026 putative active site [active] 431947000027 putative metal binding site [ion binding]; other site 431947000028 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 431947000029 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 431947000030 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 431947000031 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 431947000032 Walker A motif; other site 431947000033 ATP binding site [chemical binding]; other site 431947000034 Walker B motif; other site 431947000035 arginine finger; other site 431947000036 UvrB/uvrC motif; Region: UVR; pfam02151 431947000037 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 431947000038 Walker A motif; other site 431947000039 ATP binding site [chemical binding]; other site 431947000040 Walker B motif; other site 431947000041 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 431947000042 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 431947000043 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 431947000044 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 431947000045 Beta-lactamase; Region: Beta-lactamase; pfam00144 431947000046 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 431947000047 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 431947000048 pyridoxal 5'-phosphate binding site [chemical binding]; other site 431947000049 homodimer interface [polypeptide binding]; other site 431947000050 catalytic residue [active] 431947000051 2-phosphosulpholactate phosphatase; Region: 2-ph_phosp; pfam04029 431947000052 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 431947000053 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 431947000054 active site 431947000055 phosphorylation site [posttranslational modification] 431947000056 intermolecular recognition site; other site 431947000057 dimerization interface [polypeptide binding]; other site 431947000058 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 431947000059 Walker A motif; other site 431947000060 ATP binding site [chemical binding]; other site 431947000061 Walker B motif; other site 431947000062 arginine finger; other site 431947000063 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 431947000064 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 431947000065 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 431947000066 ATP binding site [chemical binding]; other site 431947000067 Mg2+ binding site [ion binding]; other site 431947000068 G-X-G motif; other site 431947000069 Transcriptional regulators [Transcription]; Region: MarR; COG1846 431947000070 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 431947000071 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 431947000072 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 431947000073 FMN binding site [chemical binding]; other site 431947000074 active site 431947000075 catalytic residues [active] 431947000076 substrate binding site [chemical binding]; other site 431947000077 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 431947000078 putative transporter; Provisional; Region: PRK11660 431947000079 Sulfate transporter family; Region: Sulfate_transp; pfam00916 431947000080 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 431947000081 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 431947000082 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 431947000083 CoA binding domain; Region: CoA_binding; smart00881 431947000084 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 431947000085 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 431947000086 Peptidase C25 family N-terminal domain, found in Arg-gingipain (Rgp), Lys-gingipain (Kgp) and related proteins; Region: Peptidase_C25_N; cd02258 431947000087 active site 431947000088 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 431947000089 homotrimer interaction site [polypeptide binding]; other site 431947000090 zinc binding site [ion binding]; other site 431947000091 CDP-binding sites; other site 431947000092 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 431947000093 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 431947000094 active site 431947000095 catalytic motif [active] 431947000096 Zn binding site [ion binding]; other site 431947000097 Transposase domain (DUF772); Region: DUF772; pfam05598 431947000098 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 431947000099 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 431947000100 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 431947000101 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 431947000102 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 431947000103 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 431947000104 RmuC family; Region: RmuC; pfam02646 431947000105 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 431947000106 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 431947000107 catalytic residues [active] 431947000108 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 431947000109 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 431947000110 active site 431947000111 PHP Thumb interface [polypeptide binding]; other site 431947000112 metal binding site [ion binding]; metal-binding site 431947000113 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 431947000114 generic binding surface II; other site 431947000115 generic binding surface I; other site 431947000116 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 431947000117 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 431947000118 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 431947000119 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 431947000120 dimer interface [polypeptide binding]; other site 431947000121 active site 431947000122 glycine-pyridoxal phosphate binding site [chemical binding]; other site 431947000123 folate binding site [chemical binding]; other site 431947000124 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 431947000125 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 431947000126 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 431947000127 active site 431947000128 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 431947000129 PA14 domain; Region: PA14; pfam07691 431947000130 heat shock protein 90; Provisional; Region: PRK05218 431947000131 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 431947000132 ATP binding site [chemical binding]; other site 431947000133 Mg2+ binding site [ion binding]; other site 431947000134 G-X-G motif; other site 431947000135 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 431947000136 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 431947000137 FtsH Extracellular; Region: FtsH_ext; pfam06480 431947000138 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 431947000139 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 431947000140 Walker A motif; other site 431947000141 ATP binding site [chemical binding]; other site 431947000142 Walker B motif; other site 431947000143 arginine finger; other site 431947000144 Peptidase family M41; Region: Peptidase_M41; pfam01434 431947000145 GTP-binding protein YchF; Reviewed; Region: PRK09601 431947000146 YchF GTPase; Region: YchF; cd01900 431947000147 G1 box; other site 431947000148 GTP/Mg2+ binding site [chemical binding]; other site 431947000149 Switch I region; other site 431947000150 G2 box; other site 431947000151 Switch II region; other site 431947000152 G3 box; other site 431947000153 G4 box; other site 431947000154 G5 box; other site 431947000155 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 431947000156 PcfK-like protein; Region: PcfK; pfam14058 431947000157 Antirestriction protein (ArdA); Region: ArdA; cl01953 431947000158 PcfJ-like protein; Region: PcfJ; pfam14284 431947000159 Domain of unknown function (DUF4071); Region: DUF4071; pfam13281 431947000160 MTH538 TIR-like domain (DUF1863); Region: DUF1863; pfam08937 431947000161 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 431947000162 catalytic residue [active] 431947000163 Domain of unknown function, B. Theta Gene description (DUF3872); Region: DUF3872; pfam12988 431947000164 CHC2 zinc finger; Region: zf-CHC2; cl17510 431947000165 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 431947000166 active site 431947000167 metal binding site [ion binding]; metal-binding site 431947000168 interdomain interaction site; other site 431947000169 Conjugative transposon protein TraO; Region: TraO; pfam10626 431947000170 Bacteroides conjugative transposon TraN protein; Region: Bac_Flav_CT_N; TIGR03780 431947000171 Domain of unknown function (DUF4138); Region: DUF4138; pfam13595 431947000172 Bacteroides conjugative transposon TraM protein; Region: Bac_Flav_CT_M; TIGR03779 431947000173 Protein of unknown function (DUF3714); Region: DUF3714; pfam12508 431947000174 Protein of unknown function (DUF3989); Region: DUF3989; pfam13150 431947000175 Bacteroides conjugative transposon TraK protein; Region: Bac_Flav_CT_K; TIGR03781 431947000176 Bacteroides conjugative transposon TraJ protein; Region: Bac_Flav_CT_J; TIGR03782 431947000177 Domain of unknown function (DUF4141); Region: DUF4141; pfam13605 431947000178 Bacteroides conjugation system ATPase, TraG family; Region: Bac_Flav_CT_G; TIGR03783 431947000179 Domain of unknown function, B. Theta Gene description (DUF3875); Region: DUF3875; pfam12991 431947000180 Domain of unknown function (DUF4133); Region: DUF4133; pfam13571 431947000181 Domain of unknown function (DUF4134); Region: DUF4134; pfam13572 431947000182 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 431947000183 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 431947000184 P-loop; other site 431947000185 Magnesium ion binding site [ion binding]; other site 431947000186 Protein of unknown function (DUF3408); Region: DUF3408; pfam11888 431947000187 Protein of unknown function (DUF3408); Region: DUF3408; pfam11888 431947000188 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 431947000189 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 431947000190 P-loop; other site 431947000191 Magnesium ion binding site [ion binding]; other site 431947000192 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 431947000193 YWFCY protein; Region: YWFCY; pfam14293 431947000194 AAA-like domain; Region: AAA_10; pfam12846 431947000195 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 431947000196 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 431947000197 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 431947000198 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 431947000199 RteC protein; Region: RteC; pfam09357 431947000200 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 431947000201 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 431947000202 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 431947000203 Helix-turn-helix domain; Region: HTH_18; pfam12833 431947000204 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 431947000205 Protein of unknown function (DUF4099); Region: DUF4099; pfam13351 431947000206 Protein of unknown function (DUF3945); Region: DUF3945; pfam13101 431947000207 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 431947000208 DNA topoisomerase III; Provisional; Region: PRK07726 431947000209 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 431947000210 active site 431947000211 putative interdomain interaction site [polypeptide binding]; other site 431947000212 putative metal-binding site [ion binding]; other site 431947000213 putative nucleotide binding site [chemical binding]; other site 431947000214 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 431947000215 domain I; other site 431947000216 DNA binding groove [nucleotide binding] 431947000217 phosphate binding site [ion binding]; other site 431947000218 domain II; other site 431947000219 domain III; other site 431947000220 nucleotide binding site [chemical binding]; other site 431947000221 catalytic site [active] 431947000222 domain IV; other site 431947000223 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 431947000224 Domain of unknown function (DUF1896); Region: DUF1896; pfam08989 431947000225 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 431947000226 S-adenosylmethionine binding site [chemical binding]; other site 431947000227 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 431947000228 DEAD-like helicases superfamily; Region: DEXDc; smart00487 431947000229 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 431947000230 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 431947000231 nucleotide binding region [chemical binding]; other site 431947000232 helicase superfamily c-terminal domain; Region: HELICc; smart00490 431947000233 ATP-binding site [chemical binding]; other site 431947000234 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c_3; pfam13589 431947000235 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 431947000236 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 431947000237 non-specific DNA binding site [nucleotide binding]; other site 431947000238 salt bridge; other site 431947000239 sequence-specific DNA binding site [nucleotide binding]; other site 431947000240 Helix-turn-helix domain; Region: HTH_17; pfam12728 431947000241 Helix-turn-helix domain; Region: HTH_17; pfam12728 431947000242 Helix-turn-helix domain; Region: HTH_17; pfam12728 431947000243 Helix-turn-helix domain; Region: HTH_17; pfam12728 431947000244 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 431947000245 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 431947000246 Int/Topo IB signature motif; other site 431947000247 aspartate kinase III; Validated; Region: PRK09084 431947000248 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 431947000249 putative catalytic residues [active] 431947000250 nucleotide binding site [chemical binding]; other site 431947000251 aspartate binding site [chemical binding]; other site 431947000252 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC-like_1; cd04912 431947000253 dimer interface [polypeptide binding]; other site 431947000254 allosteric regulatory binding pocket; other site 431947000255 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 431947000256 dimer interface [polypeptide binding]; other site 431947000257 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 431947000258 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 431947000259 Walker A/P-loop; other site 431947000260 ATP binding site [chemical binding]; other site 431947000261 Q-loop/lid; other site 431947000262 ABC transporter signature motif; other site 431947000263 Walker B; other site 431947000264 D-loop; other site 431947000265 H-loop/switch region; other site 431947000266 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 431947000267 Peptidase family M23; Region: Peptidase_M23; pfam01551 431947000268 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 431947000269 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 431947000270 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 431947000271 active site 431947000272 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 431947000273 substrate binding site [chemical binding]; other site 431947000274 catalytic residues [active] 431947000275 dimer interface [polypeptide binding]; other site 431947000276 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 431947000277 UbiA prenyltransferase family; Region: UbiA; pfam01040 431947000278 Penicillinase repressor; Region: Pencillinase_R; pfam03965 431947000279 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 431947000280 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 431947000281 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 431947000282 Transposase domain (DUF772); Region: DUF772; pfam05598 431947000283 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 431947000284 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 431947000285 Homologues of TraJ from Bacteroides conjugative transposon; Region: CtnDOT_TraJ; pfam07863 431947000286 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 431947000287 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 431947000288 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 431947000289 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 431947000290 Transposase domain (DUF772); Region: DUF772; pfam05598 431947000291 Protein of unknown function (DUF3078); Region: DUF3078; pfam11276 431947000292 NADH:ubiquinone oxidoreductase, Na(+)-translocating, A subunit; Region: nqrA; TIGR01936 431947000293 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 431947000294 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 431947000295 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 431947000296 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 431947000297 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 431947000298 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 431947000299 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 431947000300 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 431947000301 catalytic loop [active] 431947000302 iron binding site [ion binding]; other site 431947000303 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 431947000304 FAD binding pocket [chemical binding]; other site 431947000305 FAD binding motif [chemical binding]; other site 431947000306 phosphate binding motif [ion binding]; other site 431947000307 beta-alpha-beta structure motif; other site 431947000308 NAD binding pocket [chemical binding]; other site 431947000309 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 431947000310 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 431947000311 catalytic residues [active] 431947000312 Outer membrane protein Omp28; Region: Omp28; pfam11551 431947000313 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 431947000314 Putative D-isomer specific 2-hydroxyacid dehydrogenases, NAD-binding and catalytic domains; Region: 2-Hacid_dh_13; cd12178 431947000315 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 431947000316 putative ligand binding site [chemical binding]; other site 431947000317 putative NAD binding site [chemical binding]; other site 431947000318 catalytic site [active] 431947000319 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 431947000320 L-fucose transporter; Provisional; Region: PRK10133; cl17665 431947000321 Domain of unknown function, B. Theta Gene description (DUF3868); Region: DUF3868; pfam12984 431947000322 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 431947000323 ligand binding site [chemical binding]; other site 431947000324 Tetratricopeptide repeat; Region: TPR_16; pfam13432 431947000325 Protein of unknown function (DUF3575); Region: DUF3575; pfam12099 431947000326 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 431947000327 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 431947000328 Transposase domain (DUF772); Region: DUF772; pfam05598 431947000329 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06173 431947000330 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 431947000331 inhibitor-cofactor binding pocket; inhibition site 431947000332 pyridoxal 5'-phosphate binding site [chemical binding]; other site 431947000333 catalytic residue [active] 431947000334 biotin synthase; Region: bioB; TIGR00433 431947000335 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 431947000336 FeS/SAM binding site; other site 431947000337 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 431947000338 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 431947000339 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 431947000340 putative substrate translocation pore; other site 431947000341 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 431947000342 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 431947000343 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 431947000344 active site 431947000345 HIGH motif; other site 431947000346 dimer interface [polypeptide binding]; other site 431947000347 KMSKS motif; other site 431947000348 Domain of unknown function (DUF3127); Region: DUF3127; pfam11325 431947000349 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 431947000350 methionine sulfoxide reductase A; Provisional; Region: PRK14054 431947000351 methionine sulfoxide reductase B; Provisional; Region: PRK00222 431947000352 SelR domain; Region: SelR; pfam01641 431947000353 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 431947000354 Cation efflux family; Region: Cation_efflux; pfam01545 431947000355 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 431947000356 homooctamer interface [polypeptide binding]; other site 431947000357 active site 431947000358 Family of unknown function (DUF490); Region: DUF490; pfam04357 431947000359 Surface antigen; Region: Bac_surface_Ag; pfam01103 431947000360 Family of unknown function (DUF490); Region: DUF490; pfam04357 431947000361 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 431947000362 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 431947000363 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 431947000364 active site 431947000365 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 431947000366 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 431947000367 ATP binding site [chemical binding]; other site 431947000368 Mg++ binding site [ion binding]; other site 431947000369 motif III; other site 431947000370 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 431947000371 nucleotide binding region [chemical binding]; other site 431947000372 ATP-binding site [chemical binding]; other site 431947000373 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 431947000374 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 431947000375 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 431947000376 thiazole biosynthesis protein ThiH; Region: thiH; TIGR02351 431947000377 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 431947000378 FeS/SAM binding site; other site 431947000379 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 431947000380 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 431947000381 ThiS interaction site; other site 431947000382 putative active site [active] 431947000383 tetramer interface [polypeptide binding]; other site 431947000384 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 431947000385 thiamine phosphate binding site [chemical binding]; other site 431947000386 active site 431947000387 pyrophosphate binding site [ion binding]; other site 431947000388 HMP-P kinase/thiamin-monophosphate pyrophosphorylase; Region: PLN02898 431947000389 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 431947000390 substrate binding site [chemical binding]; other site 431947000391 dimer interface [polypeptide binding]; other site 431947000392 ATP binding site [chemical binding]; other site 431947000393 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 431947000394 thiamine phosphate binding site [chemical binding]; other site 431947000395 active site 431947000396 pyrophosphate binding site [ion binding]; other site 431947000397 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 431947000398 ThiC-associated domain; Region: ThiC-associated; pfam13667 431947000399 ThiC family; Region: ThiC; pfam01964 431947000400 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 431947000401 thiS-thiF/thiG interaction site; other site 431947000402 30S ribosomal protein S16; Provisional; Region: rpsP; PRK14521 431947000403 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 431947000404 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 431947000405 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 431947000406 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 431947000407 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 431947000408 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 431947000409 homodimer interface [polypeptide binding]; other site 431947000410 active site 431947000411 glyceraldehyde-3-phosphate dehydrogenase; Provisional; Region: PTZ00023 431947000412 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 431947000413 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 431947000414 Helix-turn-helix domain; Region: HTH_18; pfam12833 431947000415 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 431947000416 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 431947000417 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 431947000418 catalytic residue [active] 431947000419 Protein of unknown function (DUF3575); Region: DUF3575; pfam12099 431947000420 Domain of unknown function, B. Theta Gene description (DUF3868); Region: DUF3868; pfam12984 431947000421 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 431947000422 ligand binding site [chemical binding]; other site 431947000423 Major fimbrial subunit protein (FimA); Region: P_gingi_FimA; pfam06321 431947000424 Fimbrillin-A associated anchor proteins Mfa1 and Mfa2; Region: Mfa2; pfam08842 431947000425 Fimbrillin-A associated anchor proteins Mfa1 and Mfa2; Region: Mfa2; pfam08842 431947000426 Major fimbrial subunit protein (FimA); Region: P_gingi_FimA; pfam06321 431947000427 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 431947000428 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 431947000429 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 431947000430 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 431947000431 dimer interface [polypeptide binding]; other site 431947000432 active site 431947000433 CoA binding pocket [chemical binding]; other site 431947000434 GTPase Era; Reviewed; Region: era; PRK00089 431947000435 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 431947000436 G1 box; other site 431947000437 GTP/Mg2+ binding site [chemical binding]; other site 431947000438 Switch I region; other site 431947000439 G2 box; other site 431947000440 Switch II region; other site 431947000441 G3 box; other site 431947000442 G4 box; other site 431947000443 G5 box; other site 431947000444 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 431947000445 GTP-binding protein Der; Reviewed; Region: PRK00093 431947000446 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 431947000447 G1 box; other site 431947000448 GTP/Mg2+ binding site [chemical binding]; other site 431947000449 Switch I region; other site 431947000450 G2 box; other site 431947000451 Switch II region; other site 431947000452 G3 box; other site 431947000453 G4 box; other site 431947000454 G5 box; other site 431947000455 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 431947000456 G1 box; other site 431947000457 GTP/Mg2+ binding site [chemical binding]; other site 431947000458 Switch I region; other site 431947000459 G2 box; other site 431947000460 G3 box; other site 431947000461 Switch II region; other site 431947000462 G4 box; other site 431947000463 G5 box; other site 431947000464 Protein of unknown function (DUF2723); Region: DUF2723; pfam11028 431947000465 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 431947000466 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 431947000467 NodB motif; other site 431947000468 active site 431947000469 catalytic site [active] 431947000470 metal binding site [ion binding]; metal-binding site 431947000471 S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_30; cl17711 431947000472 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 431947000473 active site 431947000474 xanthine permease; Region: pbuX; TIGR03173 431947000475 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 431947000476 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 431947000477 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 431947000478 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 431947000479 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 431947000480 ligand binding site [chemical binding]; other site 431947000481 TraB family; Region: TraB; pfam01963 431947000482 RNA methyltransferase, RsmE family; Region: TIGR00046 431947000483 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 431947000484 M28 Zn-Peptidases; Region: M28_like_6; cd08656 431947000485 Peptidase family M28; Region: Peptidase_M28; pfam04389 431947000486 metal binding site [ion binding]; metal-binding site 431947000487 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 431947000488 protoporphyrinogen oxidase; Region: proto_IX_ox; TIGR00562 431947000489 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 431947000490 Helix-turn-helix domain; Region: HTH_18; pfam12833 431947000491 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 431947000492 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 431947000493 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 431947000494 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 431947000495 glycyl-tRNA synthetase; Provisional; Region: PRK04173 431947000496 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 431947000497 motif 1; other site 431947000498 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 431947000499 active site 431947000500 motif 2; other site 431947000501 motif 3; other site 431947000502 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 431947000503 anticodon binding site; other site 431947000504 Transposase domain (DUF772); Region: DUF772; pfam05598 431947000505 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 431947000506 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 431947000507 Archaeal ATPase; Region: Arch_ATPase; pfam01637 431947000508 Transposase domain (DUF772); Region: DUF772; pfam05598 431947000509 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 431947000510 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 431947000511 Transposase domain (DUF772); Region: DUF772; pfam05598 431947000512 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 431947000513 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 431947000514 Transposase domain (DUF772); Region: DUF772; pfam05598 431947000515 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 431947000516 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 431947000517 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 431947000518 DNA topoisomerase III, bacteria and conjugative plasmid; Region: topB; TIGR01056 431947000519 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 431947000520 active site 431947000521 putative interdomain interaction site [polypeptide binding]; other site 431947000522 putative metal-binding site [ion binding]; other site 431947000523 putative nucleotide binding site [chemical binding]; other site 431947000524 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 431947000525 domain I; other site 431947000526 DNA binding groove [nucleotide binding] 431947000527 phosphate binding site [ion binding]; other site 431947000528 domain II; other site 431947000529 domain III; other site 431947000530 nucleotide binding site [chemical binding]; other site 431947000531 catalytic site [active] 431947000532 domain IV; other site 431947000533 Homologues of TraJ from Bacteroides conjugative transposon; Region: CtnDOT_TraJ; pfam07863 431947000534 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 431947000535 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 431947000536 Mg++ binding site [ion binding]; other site 431947000537 putative catalytic motif [active] 431947000538 substrate binding site [chemical binding]; other site 431947000539 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 431947000540 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 431947000541 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 431947000542 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 431947000543 active site 431947000544 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 431947000545 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 431947000546 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 431947000547 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 431947000548 acyl-activating enzyme (AAE) consensus motif; other site 431947000549 active site 431947000550 AMP binding site [chemical binding]; other site 431947000551 CoA binding site [chemical binding]; other site 431947000552 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 431947000553 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 431947000554 active site 431947000555 substrate binding site [chemical binding]; other site 431947000556 trimer interface [polypeptide binding]; other site 431947000557 CoA binding site [chemical binding]; other site 431947000558 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 431947000559 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 431947000560 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 431947000561 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 431947000562 active site 431947000563 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 431947000564 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 431947000565 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 431947000566 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 431947000567 active site 431947000568 homodimer interface [polypeptide binding]; other site 431947000569 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 431947000570 IHF - DNA interface [nucleotide binding]; other site 431947000571 IHF dimer interface [polypeptide binding]; other site 431947000572 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 431947000573 Uncharacterized conserved protein [Function unknown]; Region: COG1739 431947000574 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 431947000575 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 431947000576 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 431947000577 ferrochelatase; Reviewed; Region: hemH; PRK00035 431947000578 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 431947000579 C-terminal domain interface [polypeptide binding]; other site 431947000580 active site 431947000581 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 431947000582 active site 431947000583 N-terminal domain interface [polypeptide binding]; other site 431947000584 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 431947000585 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 431947000586 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 431947000587 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 431947000588 catalytic core [active] 431947000589 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 431947000590 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 431947000591 MgtE intracellular N domain; Region: MgtE_N; smart00924 431947000592 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 431947000593 Divalent cation transporter; Region: MgtE; pfam01769 431947000594 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 431947000595 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 431947000596 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 431947000597 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 431947000598 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 431947000599 metal binding site [ion binding]; metal-binding site 431947000600 dimer interface [polypeptide binding]; other site 431947000601 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 431947000602 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 431947000603 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 431947000604 N-acetyl-D-glucosamine binding site [chemical binding]; other site 431947000605 catalytic residue [active] 431947000606 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 431947000607 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 431947000608 ParB-like nuclease domain; Region: ParBc; pfam02195 431947000609 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 431947000610 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 431947000611 P-loop; other site 431947000612 Magnesium ion binding site [ion binding]; other site 431947000613 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 431947000614 Magnesium ion binding site [ion binding]; other site 431947000615 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 431947000616 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 431947000617 putative active site; other site 431947000618 catalytic triad [active] 431947000619 putative dimer interface [polypeptide binding]; other site 431947000620 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 431947000621 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 431947000622 Preprotein translocase SecG subunit; Region: SecG; pfam03840 431947000623 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 431947000624 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 431947000625 Walker A motif; other site 431947000626 ATP binding site [chemical binding]; other site 431947000627 Walker B motif; other site 431947000628 arginine finger; other site 431947000629 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 431947000630 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 431947000631 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 431947000632 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 431947000633 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 431947000634 FeS/SAM binding site; other site 431947000635 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 431947000636 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 431947000637 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 431947000638 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 431947000639 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 431947000640 dimer interface [polypeptide binding]; other site 431947000641 active site 431947000642 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 431947000643 catalytic residues [active] 431947000644 substrate binding site [chemical binding]; other site 431947000645 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 431947000646 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 431947000647 dimer interface [polypeptide binding]; other site 431947000648 anticodon binding site; other site 431947000649 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 431947000650 homodimer interface [polypeptide binding]; other site 431947000651 motif 1; other site 431947000652 active site 431947000653 motif 2; other site 431947000654 GAD domain; Region: GAD; pfam02938 431947000655 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 431947000656 motif 3; other site 431947000657 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 431947000658 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 431947000659 catalytic motif [active] 431947000660 Zn binding site [ion binding]; other site 431947000661 RibD C-terminal domain; Region: RibD_C; pfam01872 431947000662 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 431947000663 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 431947000664 S-adenosylmethionine binding site [chemical binding]; other site 431947000665 RecX family; Region: RecX; pfam02631 431947000666 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 431947000667 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 431947000668 active site 431947000669 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 431947000670 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 431947000671 active site 431947000672 Zn binding site [ion binding]; other site 431947000673 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 431947000674 active site 431947000675 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 431947000676 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 431947000677 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 431947000678 DNA binding residues [nucleotide binding] 431947000679 diphosphate--fructose-6-phosphate 1-phosphotransferase; Provisional; Region: PRK07085 431947000680 pyrophosphate-dependent phosphofructokinase; Region: PLN02251 431947000681 active site 431947000682 ADP/pyrophosphate binding site [chemical binding]; other site 431947000683 dimerization interface [polypeptide binding]; other site 431947000684 allosteric effector site; other site 431947000685 fructose-1,6-bisphosphate binding site; other site 431947000686 Domain of unknown function (DUF1905); Region: DUF1905; pfam08922 431947000687 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 431947000688 RNA binding surface [nucleotide binding]; other site 431947000689 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 431947000690 putative active site [active] 431947000691 catalytic residue [active] 431947000692 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 431947000693 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 431947000694 5S rRNA interface [nucleotide binding]; other site 431947000695 CTC domain interface [polypeptide binding]; other site 431947000696 L16 interface [polypeptide binding]; other site 431947000697 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 431947000698 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 431947000699 active site 431947000700 HIGH motif; other site 431947000701 KMSKS motif; other site 431947000702 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 431947000703 tRNA binding surface [nucleotide binding]; other site 431947000704 anticodon binding site; other site 431947000705 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 431947000706 dimer interface [polypeptide binding]; other site 431947000707 putative tRNA-binding site [nucleotide binding]; other site 431947000708 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 431947000709 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 431947000710 active site 431947000711 metal binding site [ion binding]; metal-binding site 431947000712 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 431947000713 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 431947000714 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 431947000715 active site 431947000716 catalytic site [active] 431947000717 substrate binding site [chemical binding]; other site 431947000718 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 431947000719 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 431947000720 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 431947000721 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 431947000722 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 431947000723 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 431947000724 active site residue [active] 431947000725 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 431947000726 CPxP motif; other site 431947000727 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 431947000728 Protein of unknown function (DUF1661); Region: DUF1661; pfam07877 431947000729 Fimbrillin-A associated anchor proteins Mfa1 and Mfa2; Region: Mfa2; pfam08842 431947000730 Fimbrillin-A associated anchor proteins Mfa1 and Mfa2; Region: Mfa2; pfam08842 431947000731 Major fimbrial subunit protein (FimA); Region: P_gingi_FimA; pfam06321 431947000732 Major fimbrial subunit protein (FimA); Region: P_gingi_FimA; pfam06321 431947000733 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 431947000734 metal ion-dependent adhesion site (MIDAS); other site 431947000735 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 431947000736 Cna protein B-type domain; Region: Cna_B_2; pfam13715 431947000737 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 431947000738 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 431947000739 starch binding outer membrane protein SusD; Region: SusD; cd08977 431947000740 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14836 431947000741 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 431947000742 catalytic residue [active] 431947000743 putative FPP diphosphate binding site; other site 431947000744 putative FPP binding hydrophobic cleft; other site 431947000745 dimer interface [polypeptide binding]; other site 431947000746 putative IPP diphosphate binding site; other site 431947000747 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 431947000748 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 431947000749 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 431947000750 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 431947000751 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 431947000752 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 431947000753 Surface antigen; Region: Bac_surface_Ag; pfam01103 431947000754 periplasmic chaperone; Provisional; Region: PRK10780 431947000755 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 431947000756 periplasmic chaperone; Provisional; Region: PRK10780 431947000757 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 431947000758 Rubrerythrin [Energy production and conversion]; Region: COG1592 431947000759 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 431947000760 binuclear metal center [ion binding]; other site 431947000761 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 431947000762 iron binding site [ion binding]; other site 431947000763 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 431947000764 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 431947000765 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 431947000766 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 431947000767 Protein of unknown function (DUF805); Region: DUF805; pfam05656 431947000768 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 431947000769 active site 431947000770 hypothetical protein; Validated; Region: PRK00041 431947000771 ribonuclease P; Reviewed; Region: rnpA; PRK01903 431947000772 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 431947000773 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 431947000774 active site 431947000775 Domain of unknown function (DUF4271); Region: DUF4271; pfam14093 431947000776 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 431947000777 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 431947000778 G1 box; other site 431947000779 putative GEF interaction site [polypeptide binding]; other site 431947000780 GTP/Mg2+ binding site [chemical binding]; other site 431947000781 Switch I region; other site 431947000782 G2 box; other site 431947000783 G3 box; other site 431947000784 Switch II region; other site 431947000785 G4 box; other site 431947000786 G5 box; other site 431947000787 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 431947000788 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 431947000789 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 431947000790 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 431947000791 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 431947000792 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 431947000793 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 431947000794 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 431947000795 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 431947000796 active site 431947000797 SAM binding site [chemical binding]; other site 431947000798 homodimer interface [polypeptide binding]; other site 431947000799 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 431947000800 active site 431947000801 putative homodimer interface [polypeptide binding]; other site 431947000802 SAM binding site [chemical binding]; other site 431947000803 cobalt-precorrin-6Y C(15)-methyltransferase; Validated; Region: PRK08287 431947000804 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 431947000805 S-adenosylmethionine binding site [chemical binding]; other site 431947000806 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 431947000807 active site 431947000808 SAM binding site [chemical binding]; other site 431947000809 homodimer interface [polypeptide binding]; other site 431947000810 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 431947000811 Precorrin-8X methylmutase; Region: CbiC; pfam02570 431947000812 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 431947000813 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 431947000814 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 431947000815 DNA binding residues [nucleotide binding] 431947000816 Domain of unknown function (DUF4252); Region: DUF4252; pfam14060 431947000817 Transposase domain (DUF772); Region: DUF772; pfam05598 431947000818 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 431947000819 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 431947000820 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 431947000821 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 431947000822 active site 431947000823 catalytic site [active] 431947000824 substrate binding site [chemical binding]; other site 431947000825 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 431947000826 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 431947000827 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 431947000828 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 431947000829 DNA repair protein RadA; Provisional; Region: PRK11823 431947000830 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 431947000831 Walker A motif/ATP binding site; other site 431947000832 ATP binding site [chemical binding]; other site 431947000833 Walker B motif; other site 431947000834 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 431947000835 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 431947000836 Amidinotransferase; Region: Amidinotransf; cl12043 431947000837 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 431947000838 active site 431947000839 intersubunit interactions; other site 431947000840 catalytic residue [active] 431947000841 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 431947000842 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 431947000843 active site 431947000844 Zn binding site [ion binding]; other site 431947000845 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 431947000846 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 431947000847 FOG: PKD repeat [General function prediction only]; Region: COG3291 431947000848 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 431947000849 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 431947000850 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 431947000851 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 431947000852 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 431947000853 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 431947000854 protein binding site [polypeptide binding]; other site 431947000855 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 431947000856 Catalytic dyad [active] 431947000857 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 431947000858 ligand binding site [chemical binding]; other site 431947000859 active site 431947000860 UGI interface [polypeptide binding]; other site 431947000861 catalytic site [active] 431947000862 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 431947000863 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 431947000864 motif II; other site 431947000865 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 431947000866 Predicted methyltransferases [General function prediction only]; Region: COG0313 431947000867 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 431947000868 putative SAM binding site [chemical binding]; other site 431947000869 putative homodimer interface [polypeptide binding]; other site 431947000870 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 431947000871 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 431947000872 Ligand Binding Site [chemical binding]; other site 431947000873 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 431947000874 Ligand Binding Site [chemical binding]; other site 431947000875 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 431947000876 putative rRNA binding site [nucleotide binding]; other site 431947000877 Pyruvate/oxaloacetate carboxyltransferase [Energy production and conversion]; Region: COG5016 431947000878 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 431947000879 active site 431947000880 catalytic residues [active] 431947000881 metal binding site [ion binding]; metal-binding site 431947000882 hypothetical protein; Validated; Region: PRK02001 431947000883 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 431947000884 NusA N-terminal domain; Region: NusA_N; pfam08529 431947000885 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 431947000886 RNA binding site [nucleotide binding]; other site 431947000887 homodimer interface [polypeptide binding]; other site 431947000888 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 431947000889 G-X-X-G motif; other site 431947000890 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 431947000891 G-X-X-G motif; other site 431947000892 translation initiation factor IF-2; Validated; Region: infB; PRK05306 431947000893 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 431947000894 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 431947000895 G1 box; other site 431947000896 putative GEF interaction site [polypeptide binding]; other site 431947000897 GTP/Mg2+ binding site [chemical binding]; other site 431947000898 Switch I region; other site 431947000899 G2 box; other site 431947000900 G3 box; other site 431947000901 Switch II region; other site 431947000902 G4 box; other site 431947000903 G5 box; other site 431947000904 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 431947000905 Translation-initiation factor 2; Region: IF-2; pfam11987 431947000906 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 431947000907 Colicin V production protein; Region: Colicin_V; pfam02674 431947000908 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 431947000909 putative ABC transporter; Region: ycf24; CHL00085 431947000910 FeS assembly ATPase SufC; Region: sufC; TIGR01978 431947000911 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 431947000912 Walker A/P-loop; other site 431947000913 ATP binding site [chemical binding]; other site 431947000914 Q-loop/lid; other site 431947000915 ABC transporter signature motif; other site 431947000916 Walker B; other site 431947000917 D-loop; other site 431947000918 H-loop/switch region; other site 431947000919 FeS assembly protein SufD; Region: sufD; TIGR01981 431947000920 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 431947000921 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 431947000922 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 431947000923 active site 431947000924 HIGH motif; other site 431947000925 dimer interface [polypeptide binding]; other site 431947000926 KMSKS motif; other site 431947000927 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 431947000928 RNA binding surface [nucleotide binding]; other site 431947000929 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 431947000930 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 431947000931 Probable Catalytic site; other site 431947000932 metal-binding site 431947000933 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 431947000934 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 431947000935 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 431947000936 active site 431947000937 HIGH motif; other site 431947000938 nucleotide binding site [chemical binding]; other site 431947000939 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 431947000940 KMSK motif region; other site 431947000941 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 431947000942 tRNA binding surface [nucleotide binding]; other site 431947000943 anticodon binding site; other site 431947000944 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 431947000945 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 431947000946 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 431947000947 putative active site [active] 431947000948 putative catalytic site [active] 431947000949 putative DNA binding site [nucleotide binding]; other site 431947000950 putative phosphate binding site [ion binding]; other site 431947000951 metal binding site A [ion binding]; metal-binding site 431947000952 putative AP binding site [nucleotide binding]; other site 431947000953 putative metal binding site B [ion binding]; other site 431947000954 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 431947000955 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 431947000956 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 431947000957 dimerization interface [polypeptide binding]; other site 431947000958 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 431947000959 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 431947000960 dimer interface [polypeptide binding]; other site 431947000961 ssDNA binding site [nucleotide binding]; other site 431947000962 tetramer (dimer of dimers) interface [polypeptide binding]; other site 431947000963 Domain of unknown function DUF21; Region: DUF21; pfam01595 431947000964 gliding motility-associated protein GldE; Region: GldE; TIGR03520 431947000965 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 431947000966 Transporter associated domain; Region: CorC_HlyC; smart01091 431947000967 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 431947000968 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 431947000969 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 431947000970 catalytic residues [active] 431947000971 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 431947000972 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 431947000973 active site 431947000974 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 431947000975 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 431947000976 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 431947000977 Aspartase; Region: Aspartase; cd01357 431947000978 active sites [active] 431947000979 tetramer interface [polypeptide binding]; other site 431947000980 exopolyphosphatase; Region: exo_poly_only; TIGR03706 431947000981 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 431947000982 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 431947000983 active site 431947000984 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 431947000985 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 431947000986 nucleotide binding site [chemical binding]; other site 431947000987 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 431947000988 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 431947000989 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 431947000990 nudix motif; other site 431947000991 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 431947000992 Family of unknown function (DUF695); Region: DUF695; pfam05117 431947000993 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 431947000994 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 431947000995 active site 431947000996 Int/Topo IB signature motif; other site 431947000997 Dehydroquinase class II; Region: DHquinase_II; pfam01220 431947000998 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 431947000999 trimer interface [polypeptide binding]; other site 431947001000 active site 431947001001 dimer interface [polypeptide binding]; other site 431947001002 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 431947001003 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 431947001004 S-adenosylmethionine binding site [chemical binding]; other site 431947001005 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 431947001006 dimer interface [polypeptide binding]; other site 431947001007 catalytic triad [active] 431947001008 peroxidatic and resolving cysteines [active] 431947001009 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 431947001010 nucleoside/Zn binding site; other site 431947001011 dimer interface [polypeptide binding]; other site 431947001012 catalytic motif [active] 431947001013 S1 domain; Region: S1_2; pfam13509 431947001014 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 431947001015 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 431947001016 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 431947001017 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 431947001018 Competence-damaged protein; Region: CinA; pfam02464 431947001019 UGMP family protein; Validated; Region: PRK09604 431947001020 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 431947001021 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 431947001022 Protein of unknown function (DUF1661); Region: DUF1661; pfam07877 431947001023 ribonuclease R; Region: RNase_R; TIGR02063 431947001024 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 431947001025 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 431947001026 RNB domain; Region: RNB; pfam00773 431947001027 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 431947001028 RNA binding site [nucleotide binding]; other site 431947001029 GH3 auxin-responsive promoter; Region: GH3; pfam03321 431947001030 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 431947001031 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 431947001032 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 431947001033 Walker A/P-loop; other site 431947001034 ATP binding site [chemical binding]; other site 431947001035 Q-loop/lid; other site 431947001036 ABC transporter signature motif; other site 431947001037 Walker B; other site 431947001038 D-loop; other site 431947001039 H-loop/switch region; other site 431947001040 Cna protein B-type domain; Region: Cna_B_2; pfam13715 431947001041 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 431947001042 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 431947001043 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 431947001044 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 431947001045 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 431947001046 active site residue [active] 431947001047 alpha-1,2-mannosidase, putative; Region: aman2_put; TIGR01180 431947001048 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 431947001049 alpha-1,2-mannosidase, putative; Region: aman2_put; TIGR01180 431947001050 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 431947001051 Septum formation initiator; Region: DivIC; cl17659 431947001052 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; cl09940 431947001053 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 431947001054 RNA binding surface [nucleotide binding]; other site 431947001055 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 431947001056 active site 431947001057 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 431947001058 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 431947001059 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 431947001060 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 431947001061 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 431947001062 homodimer interface [polypeptide binding]; other site 431947001063 metal binding site [ion binding]; metal-binding site 431947001064 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 431947001065 homodimer interface [polypeptide binding]; other site 431947001066 active site 431947001067 putative chemical substrate binding site [chemical binding]; other site 431947001068 metal binding site [ion binding]; metal-binding site 431947001069 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 431947001070 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 431947001071 ATP binding site [chemical binding]; other site 431947001072 Mg2+ binding site [ion binding]; other site 431947001073 G-X-G motif; other site 431947001074 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 431947001075 anchoring element; other site 431947001076 dimer interface [polypeptide binding]; other site 431947001077 ATP binding site [chemical binding]; other site 431947001078 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 431947001079 active site 431947001080 putative metal-binding site [ion binding]; other site 431947001081 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 431947001082 Peptidase C26; Region: Peptidase_C26; pfam07722 431947001083 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 431947001084 catalytic triad [active] 431947001085 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 431947001086 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 431947001087 active site 431947001088 dimer interface [polypeptide binding]; other site 431947001089 DEAD-like helicases superfamily; Region: DEXDc; smart00487 431947001090 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 431947001091 ATP binding site [chemical binding]; other site 431947001092 putative Mg++ binding site [ion binding]; other site 431947001093 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 431947001094 YceG-like family; Region: YceG; pfam02618 431947001095 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 431947001096 dimerization interface [polypeptide binding]; other site 431947001097 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 431947001098 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 431947001099 putative ATP binding site [chemical binding]; other site 431947001100 putative substrate interface [chemical binding]; other site 431947001101 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 431947001102 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 431947001103 Walker A/P-loop; other site 431947001104 ATP binding site [chemical binding]; other site 431947001105 Q-loop/lid; other site 431947001106 ABC transporter signature motif; other site 431947001107 Walker B; other site 431947001108 D-loop; other site 431947001109 H-loop/switch region; other site 431947001110 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 431947001111 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 431947001112 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 431947001113 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 431947001114 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 431947001115 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 431947001116 nucleotide binding site/active site [active] 431947001117 HIT family signature motif; other site 431947001118 catalytic residue [active] 431947001119 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 431947001120 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 431947001121 putative active site [active] 431947001122 catalytic site [active] 431947001123 glycogen synthase, Corynebacterium family; Region: glgA_Coryne; TIGR02149 431947001124 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 431947001125 Glycogen debranching enzyme N terminal; Region: GDE_N; pfam12439 431947001126 glycogen debranching enzyme, archaeal type, putative; Region: gde_arch; TIGR01561 431947001127 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 431947001128 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 431947001129 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 431947001130 Walker A/P-loop; other site 431947001131 ATP binding site [chemical binding]; other site 431947001132 Q-loop/lid; other site 431947001133 ABC transporter signature motif; other site 431947001134 Walker B; other site 431947001135 D-loop; other site 431947001136 H-loop/switch region; other site 431947001137 Phosphoglycerate kinase; Region: PGK; pfam00162 431947001138 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 431947001139 substrate binding site [chemical binding]; other site 431947001140 hinge regions; other site 431947001141 ADP binding site [chemical binding]; other site 431947001142 catalytic site [active] 431947001143 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 431947001144 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 431947001145 active site 431947001146 substrate-binding site [chemical binding]; other site 431947001147 metal-binding site [ion binding] 431947001148 ATP binding site [chemical binding]; other site 431947001149 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 431947001150 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 431947001151 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 431947001152 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 431947001153 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 431947001154 HlyD family secretion protein; Region: HlyD_3; pfam13437 431947001155 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 431947001156 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 431947001157 FtsX-like permease family; Region: FtsX; pfam02687 431947001158 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 431947001159 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 431947001160 FtsX-like permease family; Region: FtsX; pfam02687 431947001161 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 431947001162 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 431947001163 Walker A/P-loop; other site 431947001164 ATP binding site [chemical binding]; other site 431947001165 Q-loop/lid; other site 431947001166 ABC transporter signature motif; other site 431947001167 Walker B; other site 431947001168 D-loop; other site 431947001169 H-loop/switch region; other site 431947001170 Protein of unknown function (DUF3353); Region: DUF3353; pfam11833 431947001171 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 431947001172 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 431947001173 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 431947001174 DNA binding residues [nucleotide binding] 431947001175 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 431947001176 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 431947001177 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 431947001178 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 431947001179 active site 431947001180 substrate binding site [chemical binding]; other site 431947001181 coenzyme B12 binding site [chemical binding]; other site 431947001182 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 431947001183 B12 binding site [chemical binding]; other site 431947001184 cobalt ligand [ion binding]; other site 431947001185 methylmalonyl-CoA mutase, heterodimeric type, beta chain; Region: mmCoA_mut_beta; TIGR00642 431947001186 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 431947001187 heterodimer interface [polypeptide binding]; other site 431947001188 substrate interaction site [chemical binding]; other site 431947001189 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 431947001190 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 431947001191 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 431947001192 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 431947001193 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 431947001194 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 431947001195 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 431947001196 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 431947001197 active site 431947001198 motif I; other site 431947001199 motif II; other site 431947001200 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 431947001201 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 431947001202 CoenzymeA binding site [chemical binding]; other site 431947001203 subunit interaction site [polypeptide binding]; other site 431947001204 PHB binding site; other site 431947001205 TPR repeat; Region: TPR_11; pfam13414 431947001206 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 431947001207 binding surface 431947001208 TPR motif; other site 431947001209 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 431947001210 binding surface 431947001211 Tetratricopeptide repeat; Region: TPR_16; pfam13432 431947001212 TPR motif; other site 431947001213 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 431947001214 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 431947001215 HD domain; Region: HD_4; pfam13328 431947001216 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 431947001217 synthetase active site [active] 431947001218 NTP binding site [chemical binding]; other site 431947001219 metal binding site [ion binding]; metal-binding site 431947001220 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 431947001221 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 431947001222 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 431947001223 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 431947001224 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 431947001225 putative active site [active] 431947001226 catalytic site [active] 431947001227 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 431947001228 putative active site [active] 431947001229 catalytic site [active] 431947001230 Protein of unknown function (DUF1661); Region: DUF1661; pfam07877 431947001231 Protein of unknown function (DUF452); Region: DUF452; cl01062 431947001232 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 431947001233 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 431947001234 S-adenosylmethionine binding site [chemical binding]; other site 431947001235 Interphotoreceptor retinoid-binding protein; serine protease family S41; Region: Peptidase_S41_IRBP; cd07563 431947001236 active site triad [active] 431947001237 Protein of unknown function (DUF3316); Region: DUF3316; pfam11777 431947001238 DNA topoisomerase IV subunit A; Provisional; Region: PRK12758 431947001239 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 431947001240 CAP-like domain; other site 431947001241 active site 431947001242 primary dimer interface [polypeptide binding]; other site 431947001243 FMN-binding domain; Region: FMN_bind; pfam04205 431947001244 4Fe-4S binding domain; Region: Fer4_5; pfam12801 431947001245 4Fe-4S binding domain; Region: Fer4_5; pfam12801 431947001246 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 431947001247 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 431947001248 active site 431947001249 catalytic residues [active] 431947001250 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 431947001251 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 431947001252 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 431947001253 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 431947001254 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 431947001255 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 431947001256 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 431947001257 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 431947001258 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 431947001259 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 431947001260 catalytic residues [active] 431947001261 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 431947001262 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 431947001263 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 431947001264 Low molecular weight phosphatase family; Region: LMWPc; cd00115 431947001265 active site 431947001266 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 431947001267 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 431947001268 metal-binding site [ion binding] 431947001269 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 431947001270 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 431947001271 motif II; other site 431947001272 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 431947001273 metal-binding site [ion binding] 431947001274 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 431947001275 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 431947001276 putative Iron-sulfur protein interface [polypeptide binding]; other site 431947001277 proximal heme binding site [chemical binding]; other site 431947001278 distal heme binding site [chemical binding]; other site 431947001279 putative dimer interface [polypeptide binding]; other site 431947001280 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 431947001281 L-aspartate oxidase; Provisional; Region: PRK06175 431947001282 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 431947001283 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 431947001284 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 431947001285 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 431947001286 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 431947001287 dimer interface [polypeptide binding]; other site 431947001288 substrate binding site [chemical binding]; other site 431947001289 metal binding site [ion binding]; metal-binding site 431947001290 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 431947001291 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 431947001292 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 431947001293 Lamin Tail Domain; Region: LTD; pfam00932 431947001294 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 431947001295 carboxyltransferase (CT) interaction site; other site 431947001296 biotinylation site [posttranslational modification]; other site 431947001297 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 431947001298 Ion channel; Region: Ion_trans_2; pfam07885 431947001299 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 431947001300 trimer interface [polypeptide binding]; other site 431947001301 active site 431947001302 G bulge; other site 431947001303 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 431947001304 active site 431947001305 dimerization interface [polypeptide binding]; other site 431947001306 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 431947001307 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 431947001308 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 431947001309 Acyltransferase family; Region: Acyl_transf_3; pfam01757 431947001310 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 431947001311 Domain of unknown function (DUF4296); Region: DUF4296; pfam14129 431947001312 lipoprotein signal peptidase; Provisional; Region: PRK14788 431947001313 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 431947001314 isoleucyl-tRNA synthetase; Region: ileS; TIGR00392 431947001315 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 431947001316 HIGH motif; other site 431947001317 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 431947001318 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 431947001319 active site 431947001320 KMSKS motif; other site 431947001321 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 431947001322 tRNA binding surface [nucleotide binding]; other site 431947001323 anticodon binding site; other site 431947001324 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 431947001325 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 431947001326 substrate binding site [chemical binding]; other site 431947001327 hexamer interface [polypeptide binding]; other site 431947001328 metal binding site [ion binding]; metal-binding site 431947001329 Competence protein; Region: Competence; pfam03772 431947001330 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 431947001331 Shikimate kinase; Region: SKI; pfam01202 431947001332 ADP binding site [chemical binding]; other site 431947001333 magnesium binding site [ion binding]; other site 431947001334 putative shikimate binding site; other site 431947001335 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 431947001336 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 431947001337 Zn2+ binding site [ion binding]; other site 431947001338 Mg2+ binding site [ion binding]; other site 431947001339 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 431947001340 dihydropteroate synthase; Region: DHPS; TIGR01496 431947001341 substrate binding pocket [chemical binding]; other site 431947001342 dimer interface [polypeptide binding]; other site 431947001343 inhibitor binding site; inhibition site 431947001344 Uncharacterized conserved protein [Function unknown]; Region: COG1624 431947001345 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 431947001346 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 431947001347 active site 431947001348 Tetratricopeptide repeat; Region: TPR_16; pfam13432 431947001349 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 431947001350 TPR motif; other site 431947001351 Bacterial SH3 domain homologues; Region: SH3b; smart00287 431947001352 Oxygen tolerance; Region: BatD; pfam13584 431947001353 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 431947001354 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 431947001355 TPR motif; other site 431947001356 binding surface 431947001357 Aerotolerance regulator N-terminal; Region: BatA; pfam07584 431947001358 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 431947001359 metal ion-dependent adhesion site (MIDAS); other site 431947001360 Aerotolerance regulator N-terminal; Region: BatA; pfam07584 431947001361 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 431947001362 metal ion-dependent adhesion site (MIDAS); other site 431947001363 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 431947001364 Protein of unknown function DUF58; Region: DUF58; pfam01882 431947001365 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 431947001366 metal ion-dependent adhesion site (MIDAS); other site 431947001367 MoxR-like ATPases [General function prediction only]; Region: COG0714 431947001368 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 431947001369 Walker A motif; other site 431947001370 ATP binding site [chemical binding]; other site 431947001371 Walker B motif; other site 431947001372 arginine finger; other site 431947001373 Quinolinate synthetase A protein; Region: NadA; pfam02445 431947001374 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 431947001375 nicotinate-nucleotide pyrophosphorylase; Region: nadC; TIGR00078 431947001376 dimerization interface [polypeptide binding]; other site 431947001377 active site 431947001378 L-aspartate oxidase; Provisional; Region: PRK06175 431947001379 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 431947001380 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 431947001381 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 431947001382 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 431947001383 ligand binding site [chemical binding]; other site 431947001384 flexible hinge region; other site 431947001385 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 431947001386 non-specific DNA interactions [nucleotide binding]; other site 431947001387 DNA binding site [nucleotide binding] 431947001388 sequence specific DNA binding site [nucleotide binding]; other site 431947001389 putative cAMP binding site [chemical binding]; other site 431947001390 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 431947001391 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 431947001392 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 431947001393 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 431947001394 active site residue [active] 431947001395 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 431947001396 active site residue [active] 431947001397 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 431947001398 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 431947001399 HIGH motif; other site 431947001400 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 431947001401 active site 431947001402 KMSKS motif; other site 431947001403 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 431947001404 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 431947001405 Sulfatase; Region: Sulfatase; cl17466 431947001406 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 431947001407 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 431947001408 substrate binding site; other site 431947001409 tetramer interface; other site 431947001410 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 431947001411 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 431947001412 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 431947001413 NADP binding site [chemical binding]; other site 431947001414 active site 431947001415 putative substrate binding site [chemical binding]; other site 431947001416 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 431947001417 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 431947001418 NAD binding site [chemical binding]; other site 431947001419 substrate binding site [chemical binding]; other site 431947001420 homodimer interface [polypeptide binding]; other site 431947001421 active site 431947001422 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 431947001423 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 431947001424 Uncharacterized conserved protein (DUF2149); Region: DUF2149; pfam09919 431947001425 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 431947001426 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 431947001427 CobN/Magnesium Chelatase; Region: CobN-Mg_chel; pfam02514 431947001428 CobN/Magnesium Chelatase; Region: CobN-Mg_chel; pfam02514 431947001429 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 431947001430 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 431947001431 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 431947001432 N-terminal plug; other site 431947001433 ligand-binding site [chemical binding]; other site 431947001434 Bacterial proteins similar to Porphyromonas gingivalis HmuY; Region: HmuY; cd12105 431947001435 Peptidase C10 family; Region: Peptidase_C10; pfam01640 431947001436 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 431947001437 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 431947001438 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 431947001439 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 431947001440 Protein of unknown function (DUF328); Region: DUF328; pfam03883 431947001441 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 431947001442 active site 431947001443 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 431947001444 Peptidase family U32; Region: Peptidase_U32; pfam01136 431947001445 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 431947001446 catalytic center binding site [active] 431947001447 ATP binding site [chemical binding]; other site 431947001448 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 431947001449 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 431947001450 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 431947001451 tRNA pseudouridine(55) synthase; Region: TruB; TIGR00431 431947001452 RNA binding site [nucleotide binding]; other site 431947001453 active site 431947001454 Bacitracin resistance protein BacA; Region: BacA; pfam02673 431947001455 Protein of unknown function (DUF3098); Region: DUF3098; pfam11297 431947001456 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 431947001457 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 431947001458 non-specific DNA binding site [nucleotide binding]; other site 431947001459 salt bridge; other site 431947001460 sequence-specific DNA binding site [nucleotide binding]; other site 431947001461 Transposase domain (DUF772); Region: DUF772; pfam05598 431947001462 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 431947001463 DDE superfamily endonuclease; Region: DDE_4; cl17710 431947001464 Transposase domain (DUF772); Region: DUF772; pfam05598 431947001465 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 431947001466 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 431947001467 Domain of unknown function (DUF4138); Region: DUF4138; pfam13595 431947001468 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 431947001469 Protein of unknown function (DUF4099); Region: DUF4099; pfam13351 431947001470 Protein of unknown function (DUF3945); Region: DUF3945; pfam13101 431947001471 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 431947001472 DNA topoisomerase III; Provisional; Region: PRK07726 431947001473 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 431947001474 active site 431947001475 putative interdomain interaction site [polypeptide binding]; other site 431947001476 putative metal-binding site [ion binding]; other site 431947001477 putative nucleotide binding site [chemical binding]; other site 431947001478 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 431947001479 domain I; other site 431947001480 DNA binding groove [nucleotide binding] 431947001481 phosphate binding site [ion binding]; other site 431947001482 domain II; other site 431947001483 domain III; other site 431947001484 nucleotide binding site [chemical binding]; other site 431947001485 catalytic site [active] 431947001486 domain IV; other site 431947001487 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 431947001488 AAA domain; Region: AAA_25; pfam13481 431947001489 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 431947001490 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 431947001491 Transposase domain (DUF772); Region: DUF772; pfam05598 431947001492 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 431947001493 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 431947001494 Fic family protein [Function unknown]; Region: COG3177 431947001495 Fic/DOC family; Region: Fic; pfam02661 431947001496 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 431947001497 Domain of unknown function, B. Theta Gene description (DUF3872); Region: DUF3872; pfam12988 431947001498 Conjugative transposon protein TraO; Region: TraO; pfam10626 431947001499 Bacteroides conjugative transposon TraN protein; Region: Bac_Flav_CT_N; TIGR03780 431947001500 Domain of unknown function (DUF4138); Region: DUF4138; pfam13595 431947001501 Bacteroides conjugative transposon TraM protein; Region: Bac_Flav_CT_M; TIGR03779 431947001502 Protein of unknown function (DUF3714); Region: DUF3714; pfam12508 431947001503 Protein of unknown function (DUF3989); Region: DUF3989; pfam13150 431947001504 Bacteroides conjugative transposon TraK protein; Region: Bac_Flav_CT_K; TIGR03781 431947001505 Bacteroides conjugative transposon TraJ protein; Region: Bac_Flav_CT_J; TIGR03782 431947001506 Domain of unknown function (DUF4141); Region: DUF4141; pfam13605 431947001507 Bacteroides conjugation system ATPase, TraG family; Region: Bac_Flav_CT_G; TIGR03783 431947001508 Transposase domain (DUF772); Region: DUF772; pfam05598 431947001509 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 431947001510 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 431947001511 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 431947001512 Ferritin-like domain; Region: Ferritin; pfam00210 431947001513 ferroxidase diiron center [ion binding]; other site 431947001514 Transposase domain (DUF772); Region: DUF772; pfam05598 431947001515 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 431947001516 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 431947001517 glucosamine-6-phosphate deaminase-like protein; Validated; Region: PRK02122 431947001518 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 431947001519 active site 431947001520 trimer interface [polypeptide binding]; other site 431947001521 allosteric site; other site 431947001522 active site lid [active] 431947001523 hexamer (dimer of trimers) interface [polypeptide binding]; other site 431947001524 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 431947001525 Peptidase S46; Region: Peptidase_S46; pfam10459 431947001526 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 431947001527 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 431947001528 putative active site [active] 431947001529 putative metal binding residues [ion binding]; other site 431947001530 signature motif; other site 431947001531 putative dimer interface [polypeptide binding]; other site 431947001532 putative phosphate binding site [ion binding]; other site 431947001533 Domain of unknown function (DUF2027); Region: DUF2027; pfam09640 431947001534 Smr domain; Region: Smr; cl02619 431947001535 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 431947001536 Uncharacterized conserved protein [Function unknown]; Region: COG4198 431947001537 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 431947001538 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_3; cd12174 431947001539 putative ligand binding site [chemical binding]; other site 431947001540 putative NAD binding site [chemical binding]; other site 431947001541 putative catalytic site [active] 431947001542 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 431947001543 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 431947001544 catalytic residue [active] 431947001545 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 431947001546 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 431947001547 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 431947001548 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 431947001549 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 431947001550 elongation factor P; Validated; Region: PRK00529 431947001551 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 431947001552 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 431947001553 RNA binding site [nucleotide binding]; other site 431947001554 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 431947001555 RNA binding site [nucleotide binding]; other site 431947001556 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 431947001557 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 431947001558 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 431947001559 MraW methylase family; Region: Methyltransf_5; cl17771 431947001560 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 431947001561 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 431947001562 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 431947001563 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 431947001564 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 431947001565 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 431947001566 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 431947001567 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 431947001568 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 431947001569 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 431947001570 Mg++ binding site [ion binding]; other site 431947001571 putative catalytic motif [active] 431947001572 putative substrate binding site [chemical binding]; other site 431947001573 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 431947001574 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 431947001575 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 431947001576 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 431947001577 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 431947001578 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 431947001579 active site 431947001580 homodimer interface [polypeptide binding]; other site 431947001581 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 431947001582 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 431947001583 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 431947001584 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 431947001585 Cell division protein FtsA; Region: FtsA; smart00842 431947001586 Cell division protein FtsA; Region: FtsA; pfam14450 431947001587 cell division protein FtsZ; Validated; Region: PRK09330 431947001588 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 431947001589 nucleotide binding site [chemical binding]; other site 431947001590 SulA interaction site; other site 431947001591 Yqey-like protein; Region: YqeY; pfam09424 431947001592 Predicted membrane protein [Function unknown]; Region: COG2860 431947001593 UPF0126 domain; Region: UPF0126; pfam03458 431947001594 UPF0126 domain; Region: UPF0126; pfam03458 431947001595 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 431947001596 oligomerization interface [polypeptide binding]; other site 431947001597 active site 431947001598 metal binding site [ion binding]; metal-binding site 431947001599 GMP synthase; Reviewed; Region: guaA; PRK00074 431947001600 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 431947001601 AMP/PPi binding site [chemical binding]; other site 431947001602 candidate oxyanion hole; other site 431947001603 catalytic triad [active] 431947001604 potential glutamine specificity residues [chemical binding]; other site 431947001605 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 431947001606 ATP Binding subdomain [chemical binding]; other site 431947001607 Ligand Binding sites [chemical binding]; other site 431947001608 Dimerization subdomain; other site 431947001609 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 431947001610 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 431947001611 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 431947001612 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 431947001613 protein binding site [polypeptide binding]; other site 431947001614 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 431947001615 protein binding site [polypeptide binding]; other site 431947001616 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 431947001617 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 431947001618 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 431947001619 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 431947001620 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 431947001621 DNA binding residues [nucleotide binding] 431947001622 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 431947001623 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 431947001624 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 431947001625 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 431947001626 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 431947001627 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 431947001628 Predicted permeases [General function prediction only]; Region: COG0795 431947001629 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 431947001630 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 431947001631 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 431947001632 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 431947001633 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 431947001634 dimerization interface [polypeptide binding]; other site 431947001635 active site 431947001636 Transposase domain (DUF772); Region: DUF772; pfam05598 431947001637 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 431947001638 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 431947001639 cytidylate kinase; Provisional; Region: cmk; PRK00023 431947001640 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 431947001641 active site 431947001642 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 431947001643 CMP-binding site; other site 431947001644 The sites determining sugar specificity; other site 431947001645 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 431947001646 LytB protein; Region: LYTB; cl00507 431947001647 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 431947001648 putative catalytic site [active] 431947001649 putative metal binding site [ion binding]; other site 431947001650 putative phosphate binding site [ion binding]; other site 431947001651 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 431947001652 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 431947001653 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 431947001654 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 431947001655 G1 box; other site 431947001656 putative GEF interaction site [polypeptide binding]; other site 431947001657 GTP/Mg2+ binding site [chemical binding]; other site 431947001658 Switch I region; other site 431947001659 G2 box; other site 431947001660 G3 box; other site 431947001661 Switch II region; other site 431947001662 G4 box; other site 431947001663 G5 box; other site 431947001664 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 431947001665 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 431947001666 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 431947001667 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 431947001668 peroxiredoxin; Region: AhpC; TIGR03137 431947001669 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 431947001670 dimer interface [polypeptide binding]; other site 431947001671 decamer (pentamer of dimers) interface [polypeptide binding]; other site 431947001672 catalytic triad [active] 431947001673 peroxidatic and resolving cysteines [active] 431947001674 alkyl hydroperoxide reductase subunit F; Region: AhpF; TIGR03140 431947001675 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 431947001676 catalytic residue [active] 431947001677 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 431947001678 catalytic residues [active] 431947001679 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 431947001680 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 431947001681 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 431947001682 Found in ATP-dependent protease La (LON); Region: LON; smart00464 431947001683 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 431947001684 Walker A motif; other site 431947001685 ATP binding site [chemical binding]; other site 431947001686 Walker B motif; other site 431947001687 arginine finger; other site 431947001688 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 431947001689 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 431947001690 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 431947001691 DoxX; Region: DoxX; pfam07681 431947001692 triosephosphate isomerase; Provisional; Region: PRK14567 431947001693 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 431947001694 substrate binding site [chemical binding]; other site 431947001695 dimer interface [polypeptide binding]; other site 431947001696 catalytic triad [active] 431947001697 Sporulation related domain; Region: SPOR; pfam05036 431947001698 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 431947001699 homodecamer interface [polypeptide binding]; other site 431947001700 GTP cyclohydrolase I; Provisional; Region: PLN03044 431947001701 active site 431947001702 putative catalytic site residues [active] 431947001703 zinc binding site [ion binding]; other site 431947001704 GTP-CH-I/GFRP interaction surface; other site 431947001705 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 431947001706 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 431947001707 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 431947001708 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 431947001709 Walker A/P-loop; other site 431947001710 ATP binding site [chemical binding]; other site 431947001711 Q-loop/lid; other site 431947001712 ABC transporter signature motif; other site 431947001713 Walker B; other site 431947001714 D-loop; other site 431947001715 H-loop/switch region; other site 431947001716 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK01911 431947001717 ATP-NAD kinase; Region: NAD_kinase; pfam01513 431947001718 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 431947001719 active site 431947001720 hydrophilic channel; other site 431947001721 dimerization interface [polypeptide binding]; other site 431947001722 catalytic residues [active] 431947001723 active site lid [active] 431947001724 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 431947001725 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 431947001726 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 431947001727 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 431947001728 DJ-1 family protein; Region: not_thiJ; TIGR01383 431947001729 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 431947001730 conserved cys residue [active] 431947001731 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 431947001732 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 431947001733 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 431947001734 S-adenosylmethionine binding site [chemical binding]; other site 431947001735 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_1; cd13140 431947001736 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 431947001737 thiamine-monophosphate kinase; Region: thiL; TIGR01379 431947001738 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 431947001739 ATP binding site [chemical binding]; other site 431947001740 dimerization interface [polypeptide binding]; other site 431947001741 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 431947001742 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 431947001743 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 431947001744 tandem repeat interface [polypeptide binding]; other site 431947001745 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 431947001746 oligomer interface [polypeptide binding]; other site 431947001747 active site residues [active] 431947001748 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 431947001749 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 431947001750 tandem repeat interface [polypeptide binding]; other site 431947001751 oligomer interface [polypeptide binding]; other site 431947001752 active site residues [active] 431947001753 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 431947001754 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 431947001755 N-terminal plug; other site 431947001756 ligand-binding site [chemical binding]; other site 431947001757 Adenosylcobinamide amidohydrolase; Region: CbiZ; pfam01955 431947001758 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 431947001759 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 431947001760 Walker A/P-loop; other site 431947001761 ATP binding site [chemical binding]; other site 431947001762 Q-loop/lid; other site 431947001763 ABC transporter signature motif; other site 431947001764 Walker B; other site 431947001765 D-loop; other site 431947001766 H-loop/switch region; other site 431947001767 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 431947001768 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 431947001769 ABC-ATPase subunit interface; other site 431947001770 dimer interface [polypeptide binding]; other site 431947001771 putative PBP binding regions; other site 431947001772 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 431947001773 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 431947001774 intersubunit interface [polypeptide binding]; other site 431947001775 Protein of unknown function (DUF3109); Region: DUF3109; pfam11307 431947001776 Protein of unknown function (DUF3276); Region: DUF3276; pfam11680 431947001777 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 431947001778 Zn2+ binding site [ion binding]; other site 431947001779 Mg2+ binding site [ion binding]; other site 431947001780 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 431947001781 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 431947001782 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 431947001783 phosphoserine phosphatase SerB; Region: serB; TIGR00338 431947001784 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 431947001785 motif II; other site 431947001786 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 431947001787 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 431947001788 Maf-like protein; Region: Maf; pfam02545 431947001789 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 431947001790 active site 431947001791 dimer interface [polypeptide binding]; other site 431947001792 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 431947001793 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 431947001794 active site 431947001795 motif I; other site 431947001796 motif II; other site 431947001797 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 431947001798 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 431947001799 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 431947001800 putative FMN binding site [chemical binding]; other site 431947001801 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 431947001802 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 431947001803 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 431947001804 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 431947001805 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 431947001806 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 431947001807 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 431947001808 Phosphotransferase enzyme family; Region: APH; pfam01636 431947001809 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 431947001810 Cna protein B-type domain; Region: Cna_B_2; pfam13715 431947001811 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 431947001812 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 431947001813 N-terminal plug; other site 431947001814 ligand-binding site [chemical binding]; other site 431947001815 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 431947001816 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 431947001817 active site 431947001818 C-terminal domain interface [polypeptide binding]; other site 431947001819 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 431947001820 active site 431947001821 N-terminal domain interface [polypeptide binding]; other site 431947001822 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 431947001823 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 431947001824 intersubunit interface [polypeptide binding]; other site 431947001825 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 431947001826 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 431947001827 ABC-ATPase subunit interface; other site 431947001828 dimer interface [polypeptide binding]; other site 431947001829 putative PBP binding regions; other site 431947001830 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 431947001831 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 431947001832 Walker A/P-loop; other site 431947001833 ATP binding site [chemical binding]; other site 431947001834 Q-loop/lid; other site 431947001835 ABC transporter signature motif; other site 431947001836 Walker B; other site 431947001837 D-loop; other site 431947001838 H-loop/switch region; other site 431947001839 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 431947001840 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 431947001841 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 431947001842 dimer interface [polypeptide binding]; other site 431947001843 PYR/PP interface [polypeptide binding]; other site 431947001844 TPP binding site [chemical binding]; other site 431947001845 substrate binding site [chemical binding]; other site 431947001846 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 431947001847 TPP-binding site; other site 431947001848 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 431947001849 malonic semialdehyde reductase; Provisional; Region: PRK10538 431947001850 putative NAD(P) binding site [chemical binding]; other site 431947001851 homodimer interface [polypeptide binding]; other site 431947001852 homotetramer interface [polypeptide binding]; other site 431947001853 active site 431947001854 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 431947001855 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 431947001856 catalytic triad [active] 431947001857 conserved cis-peptide bond; other site 431947001858 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 431947001859 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 431947001860 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 431947001861 HlyD family secretion protein; Region: HlyD_3; pfam13437 431947001862 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 431947001863 FtsX-like permease family; Region: FtsX; pfam02687 431947001864 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 431947001865 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 431947001866 FtsX-like permease family; Region: FtsX; pfam02687 431947001867 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 431947001868 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 431947001869 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 431947001870 FtsX-like permease family; Region: FtsX; pfam02687 431947001871 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 431947001872 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 431947001873 Walker A/P-loop; other site 431947001874 ATP binding site [chemical binding]; other site 431947001875 Q-loop/lid; other site 431947001876 ABC transporter signature motif; other site 431947001877 Walker B; other site 431947001878 D-loop; other site 431947001879 H-loop/switch region; other site 431947001880 Uncharacterized conserved protein [Function unknown]; Region: COG2461 431947001881 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 431947001882 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 431947001883 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 431947001884 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 431947001885 putative catalytic cysteine [active] 431947001886 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 431947001887 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 431947001888 active site 431947001889 NAD binding site [chemical binding]; other site 431947001890 metal binding site [ion binding]; metal-binding site 431947001891 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 431947001892 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 431947001893 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 431947001894 NifU-like domain; Region: NifU; cl00484 431947001895 Aromatic ring hydroxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2368 431947001896 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 431947001897 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 431947001898 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 431947001899 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 431947001900 ligand binding site [chemical binding]; other site 431947001901 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 431947001902 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 431947001903 ligand binding site [chemical binding]; other site 431947001904 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 431947001905 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 431947001906 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 431947001907 putative homodimer interface [polypeptide binding]; other site 431947001908 putative active site pocket [active] 431947001909 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 431947001910 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 431947001911 homotrimer interface [polypeptide binding]; other site 431947001912 Walker A motif; other site 431947001913 GTP binding site [chemical binding]; other site 431947001914 Walker B motif; other site 431947001915 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 431947001916 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 431947001917 putative dimer interface [polypeptide binding]; other site 431947001918 active site pocket [active] 431947001919 putative cataytic base [active] 431947001920 cobalamin synthase; Reviewed; Region: cobS; PRK00235 431947001921 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 431947001922 catalytic core [active] 431947001923 glutamate racemase; Provisional; Region: PRK00865 431947001924 META domain; Region: META; pfam03724 431947001925 Cna protein B-type domain; Region: Cna_B_2; pfam13715 431947001926 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 431947001927 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 431947001928 N-terminal plug; other site 431947001929 ligand-binding site [chemical binding]; other site 431947001930 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 431947001931 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 431947001932 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 431947001933 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 431947001934 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 431947001935 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 431947001936 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 431947001937 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 431947001938 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 431947001939 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 431947001940 PAS domain; Region: PAS_9; pfam13426 431947001941 putative active site [active] 431947001942 heme pocket [chemical binding]; other site 431947001943 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 431947001944 Glutamine amidotransferase class-I; Region: GATase; pfam00117 431947001945 glutamine binding [chemical binding]; other site 431947001946 catalytic triad [active] 431947001947 Domain of unknown function (DUF4332); Region: DUF4332; pfam14229 431947001948 Transposase domain (DUF772); Region: DUF772; pfam05598 431947001949 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 431947001950 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 431947001951 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 431947001952 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 431947001953 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 431947001954 Cl binding site [ion binding]; other site 431947001955 oligomer interface [polypeptide binding]; other site 431947001956 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 431947001957 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 431947001958 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 431947001959 active site 431947001960 phosphorylation site [posttranslational modification] 431947001961 intermolecular recognition site; other site 431947001962 dimerization interface [polypeptide binding]; other site 431947001963 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 431947001964 DNA binding site [nucleotide binding] 431947001965 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 431947001966 NlpC/P60 family; Region: NLPC_P60; pfam00877 431947001967 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 431947001968 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 431947001969 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 431947001970 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 431947001971 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 431947001972 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 431947001973 PEGA domain; Region: PEGA; pfam08308 431947001974 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 431947001975 putative acyl-acceptor binding pocket; other site 431947001976 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 431947001977 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 431947001978 ATP-grasp domain; Region: ATP-grasp_4; cl17255 431947001979 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 431947001980 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 431947001981 RNA binding surface [nucleotide binding]; other site 431947001982 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 431947001983 active site 431947001984 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 431947001985 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 431947001986 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 431947001987 Lumazine binding domain; Region: Lum_binding; pfam00677 431947001988 Lumazine binding domain; Region: Lum_binding; pfam00677 431947001989 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 431947001990 putative FMN binding site [chemical binding]; other site 431947001991 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 431947001992 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 431947001993 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 431947001994 catalytic residue [active] 431947001995 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 431947001996 RNA/DNA hybrid binding site [nucleotide binding]; other site 431947001997 active site 431947001998 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 431947001999 nucleoside/Zn binding site; other site 431947002000 dimer interface [polypeptide binding]; other site 431947002001 catalytic motif [active] 431947002002 ribonuclease Z; Region: RNase_Z; TIGR02651 431947002003 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 431947002004 NlpC/P60 family; Region: NLPC_P60; pfam00877 431947002005 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 431947002006 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 431947002007 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 431947002008 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 431947002009 dimer interface [polypeptide binding]; other site 431947002010 active site 431947002011 metal binding site [ion binding]; metal-binding site 431947002012 glutathione binding site [chemical binding]; other site 431947002013 PAS domain; Region: PAS; smart00091 431947002014 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 431947002015 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 431947002016 ATP binding site [chemical binding]; other site 431947002017 Mg2+ binding site [ion binding]; other site 431947002018 G-X-G motif; other site 431947002019 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 431947002020 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 431947002021 active site 431947002022 phosphorylation site [posttranslational modification] 431947002023 intermolecular recognition site; other site 431947002024 dimerization interface [polypeptide binding]; other site 431947002025 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 431947002026 Walker A motif; other site 431947002027 ATP binding site [chemical binding]; other site 431947002028 Walker B motif; other site 431947002029 arginine finger; other site 431947002030 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 431947002031 metal-binding site 431947002032 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 431947002033 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 431947002034 active site 431947002035 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 431947002036 Peptidase family U32; Region: Peptidase_U32; pfam01136 431947002037 Collagenase; Region: DUF3656; pfam12392 431947002038 DNA topoisomerase I; Validated; Region: PRK06599 431947002039 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 431947002040 active site 431947002041 interdomain interaction site; other site 431947002042 putative metal-binding site [ion binding]; other site 431947002043 nucleotide binding site [chemical binding]; other site 431947002044 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 431947002045 domain I; other site 431947002046 DNA binding groove [nucleotide binding] 431947002047 phosphate binding site [ion binding]; other site 431947002048 domain II; other site 431947002049 domain III; other site 431947002050 nucleotide binding site [chemical binding]; other site 431947002051 catalytic site [active] 431947002052 domain IV; other site 431947002053 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 431947002054 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 431947002055 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 431947002056 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 431947002057 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 431947002058 dimerization interface 3.5A [polypeptide binding]; other site 431947002059 active site 431947002060 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 431947002061 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 431947002062 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 431947002063 dipeptidyl carboxypeptidase II; Provisional; Region: PRK10280 431947002064 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 431947002065 active site 431947002066 Zn binding site [ion binding]; other site 431947002067 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 431947002068 binding surface 431947002069 TPR repeat; Region: TPR_11; pfam13414 431947002070 TPR motif; other site 431947002071 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 431947002072 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 431947002073 trigger factor; Region: tig; TIGR00115 431947002074 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 431947002075 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 431947002076 RNase E interface [polypeptide binding]; other site 431947002077 trimer interface [polypeptide binding]; other site 431947002078 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 431947002079 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 431947002080 RNase E interface [polypeptide binding]; other site 431947002081 trimer interface [polypeptide binding]; other site 431947002082 active site 431947002083 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 431947002084 putative nucleic acid binding region [nucleotide binding]; other site 431947002085 G-X-X-G motif; other site 431947002086 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 431947002087 RNA binding site [nucleotide binding]; other site 431947002088 domain interface; other site 431947002089 4-alpha-glucanotransferase; Region: PLN02950 431947002090 The family 20 carbohydrate-binding module (CBM20), also known as the starch-binding domain, is found in a large number of starch degrading enzymes including alpha-amylase, beta-amylase, glucoamylase, and CGTase (cyclodextrin glucanotransferase). CBM20 is...; Region: CBM20; cl15347 431947002091 starch-binding site 2 [chemical binding]; other site 431947002092 The family 20 carbohydrate-binding module (CBM20), also known as the starch-binding domain, is found in a large number of starch degrading enzymes including alpha-amylase, beta-amylase, glucoamylase, and CGTase (cyclodextrin glucanotransferase). CBM20 is...; Region: CBM20; cl15347 431947002093 starch-binding site 2 [chemical binding]; other site 431947002094 starch-binding site 1 [chemical binding]; other site 431947002095 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 431947002096 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 431947002097 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 431947002098 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 431947002099 FAD binding site [chemical binding]; other site 431947002100 substrate binding site [chemical binding]; other site 431947002101 catalytic residues [active] 431947002102 Acyl-CoA dehydrogenase C terminal; Region: AcylCoA_dehyd_C; pfam12186 431947002103 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 431947002104 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 431947002105 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 431947002106 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 431947002107 Ligand binding site [chemical binding]; other site 431947002108 Electron transfer flavoprotein domain; Region: ETF; pfam01012 431947002109 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 431947002110 Glycoprotease family; Region: Peptidase_M22; pfam00814 431947002111 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 431947002112 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 431947002113 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 431947002114 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 431947002115 Amidohydrolase; Region: Amidohydro_4; pfam13147 431947002116 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 431947002117 active site 431947002118 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 431947002119 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 431947002120 substrate binding pocket [chemical binding]; other site 431947002121 chain length determination region; other site 431947002122 substrate-Mg2+ binding site; other site 431947002123 catalytic residues [active] 431947002124 aspartate-rich region 1; other site 431947002125 active site lid residues [active] 431947002126 aspartate-rich region 2; other site 431947002127 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 431947002128 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 431947002129 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 431947002130 Cna protein B-type domain; Region: Cna_B_2; pfam13715 431947002131 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 431947002132 B3/4 domain; Region: B3_4; pfam03483 431947002133 GTPase CgtA; Reviewed; Region: obgE; PRK12298 431947002134 GTP1/OBG; Region: GTP1_OBG; pfam01018 431947002135 Obg GTPase; Region: Obg; cd01898 431947002136 G1 box; other site 431947002137 GTP/Mg2+ binding site [chemical binding]; other site 431947002138 Switch I region; other site 431947002139 G2 box; other site 431947002140 G3 box; other site 431947002141 Switch II region; other site 431947002142 G4 box; other site 431947002143 G5 box; other site 431947002144 adenylate kinase; Reviewed; Region: adk; PRK00279 431947002145 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 431947002146 AMP-binding site [chemical binding]; other site 431947002147 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 431947002148 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 431947002149 active site 431947002150 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 431947002151 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 431947002152 Transglycosylase; Region: Transgly; pfam00912 431947002153 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 431947002154 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 431947002155 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 431947002156 leucyl-tRNA synthetase, eubacterial and mitochondrial family; Region: leuS_bact; TIGR00396 431947002157 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 431947002158 HIGH motif; other site 431947002159 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 431947002160 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 431947002161 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 431947002162 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 431947002163 active site 431947002164 KMSKS motif; other site 431947002165 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 431947002166 tRNA binding surface [nucleotide binding]; other site 431947002167 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 431947002168 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 431947002169 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 431947002170 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 431947002171 active site 431947002172 NTP binding site [chemical binding]; other site 431947002173 metal binding triad [ion binding]; metal-binding site 431947002174 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 431947002175 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 431947002176 Zn2+ binding site [ion binding]; other site 431947002177 Mg2+ binding site [ion binding]; other site 431947002178 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 431947002179 Homologues of TraJ from Bacteroides conjugative transposon; Region: CtnDOT_TraJ; pfam07863 431947002180 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 431947002181 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 431947002182 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 431947002183 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 431947002184 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 431947002185 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 431947002186 active site 431947002187 trimer interface [polypeptide binding]; other site 431947002188 allosteric site; other site 431947002189 active site lid [active] 431947002190 hexamer (dimer of trimers) interface [polypeptide binding]; other site 431947002191 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 431947002192 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 431947002193 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 431947002194 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 431947002195 diaminopimelate dehydrogenase; Region: DAP-DH; TIGR01921 431947002196 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 431947002197 putative RNA binding site [nucleotide binding]; other site 431947002198 transcription antitermination factor NusB; Region: nusB; TIGR01951 431947002199 cell surface protein SprA; Region: surface_SprA; TIGR04189 431947002200 Motility related/secretion protein; Region: SprA_N; pfam14349 431947002201 Motility related/secretion protein; Region: SprA_N; pfam14349 431947002202 Motility related/secretion protein; Region: SprA_N; pfam14349 431947002203 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 431947002204 RuvA N terminal domain; Region: RuvA_N; pfam01330 431947002205 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 431947002206 Transposase domain (DUF772); Region: DUF772; pfam05598 431947002207 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 431947002208 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 431947002209 Cna protein B-type domain; Region: Cna_B_2; pfam13715 431947002210 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 431947002211 GLPGLI family protein; Region: GLPGLI; TIGR01200 431947002212 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 431947002213 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 431947002214 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 431947002215 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 431947002216 Exonuclease VII small subunit; Region: Exonuc_VII_S; pfam02609 431947002217 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 431947002218 substrate binding site; other site 431947002219 dimer interface; other site 431947002220 Transposase domain (DUF772); Region: DUF772; pfam05598 431947002221 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 431947002222 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 431947002223 ORF6N domain; Region: ORF6N; pfam10543 431947002224 Domain of unknown function (DUF1896); Region: DUF1896; pfam08989 431947002225 PcfK-like protein; Region: PcfK; pfam14058 431947002226 PcfK-like protein; Region: PcfK; pfam14058 431947002227 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 431947002228 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 431947002229 A/G-specific adenine glycosylase; Region: mutY; TIGR01084 431947002230 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 431947002231 minor groove reading motif; other site 431947002232 helix-hairpin-helix signature motif; other site 431947002233 substrate binding pocket [chemical binding]; other site 431947002234 active site 431947002235 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 431947002236 DNA binding and oxoG recognition site [nucleotide binding] 431947002237 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 431947002238 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 431947002239 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 431947002240 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 431947002241 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 431947002242 Walker A/P-loop; other site 431947002243 ATP binding site [chemical binding]; other site 431947002244 Q-loop/lid; other site 431947002245 ABC transporter signature motif; other site 431947002246 Walker B; other site 431947002247 D-loop; other site 431947002248 H-loop/switch region; other site 431947002249 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 431947002250 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 431947002251 dimer interface [polypeptide binding]; other site 431947002252 conserved gate region; other site 431947002253 putative PBP binding loops; other site 431947002254 ABC-ATPase subunit interface; other site 431947002255 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 431947002256 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 431947002257 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 431947002258 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 431947002259 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 431947002260 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 431947002261 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 431947002262 DNA methylase; Region: N6_N4_Mtase; pfam01555 431947002263 DNA methylase; Region: N6_N4_Mtase; pfam01555 431947002264 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 431947002265 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 431947002266 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 431947002267 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 431947002268 purine monophosphate binding site [chemical binding]; other site 431947002269 dimer interface [polypeptide binding]; other site 431947002270 putative catalytic residues [active] 431947002271 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 431947002272 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 431947002273 rod shape-determining protein MreB; Provisional; Region: PRK13927 431947002274 MreB and similar proteins; Region: MreB_like; cd10225 431947002275 nucleotide binding site [chemical binding]; other site 431947002276 Mg binding site [ion binding]; other site 431947002277 putative protofilament interaction site [polypeptide binding]; other site 431947002278 RodZ interaction site [polypeptide binding]; other site 431947002279 rod shape-determining protein MreC; Provisional; Region: PRK13922 431947002280 rod shape-determining protein MreC; Region: MreC; pfam04085 431947002281 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 431947002282 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 431947002283 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 431947002284 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 431947002285 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 431947002286 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 431947002287 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 431947002288 Protein of unknown function (DUF3256); Region: DUF3256; pfam11644 431947002289 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 431947002290 DNA gyrase subunit A; Validated; Region: PRK05560 431947002291 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 431947002292 CAP-like domain; other site 431947002293 active site 431947002294 primary dimer interface [polypeptide binding]; other site 431947002295 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 431947002296 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 431947002297 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 431947002298 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 431947002299 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 431947002300 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 431947002301 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 431947002302 TPR motif; other site 431947002303 binding surface 431947002304 TPR repeat; Region: TPR_11; pfam13414 431947002305 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 431947002306 binding surface 431947002307 TPR motif; other site 431947002308 TPR repeat; Region: TPR_11; pfam13414 431947002309 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 431947002310 ATP binding site [chemical binding]; other site 431947002311 putative Mg++ binding site [ion binding]; other site 431947002312 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 431947002313 nucleotide binding region [chemical binding]; other site 431947002314 ATP-binding site [chemical binding]; other site 431947002315 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 431947002316 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 431947002317 tryptophanase/L-cysteine desulfhydrase, PLP-dependent; Provisional; Region: tnaA; PRK13238 431947002318 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 431947002319 substrate binding site [chemical binding]; other site 431947002320 tetramer interface [polypeptide binding]; other site 431947002321 catalytic residue [active] 431947002322 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; uncharacterized family 2; Region: EEP-2; cd09084 431947002323 putative catalytic site [active] 431947002324 putative metal binding site [ion binding]; other site 431947002325 putative phosphate binding site [ion binding]; other site 431947002326 Rhomboid family; Region: Rhomboid; cl11446 431947002327 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 431947002328 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 431947002329 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 431947002330 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 431947002331 putative transporter; Validated; Region: PRK03818 431947002332 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 431947002333 TrkA-C domain; Region: TrkA_C; pfam02080 431947002334 TrkA-C domain; Region: TrkA_C; pfam02080 431947002335 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 431947002336 Cna protein B-type domain; Region: Cna_B_2; pfam13715 431947002337 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 431947002338 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 431947002339 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 431947002340 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 431947002341 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 431947002342 FMN binding site [chemical binding]; other site 431947002343 substrate binding site [chemical binding]; other site 431947002344 putative catalytic residue [active] 431947002345 fumarate hydratase; Provisional; Region: PRK15389 431947002346 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 431947002347 Fumarase C-terminus; Region: Fumerase_C; pfam05683 431947002348 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14971 431947002349 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 431947002350 Walker A motif; other site 431947002351 ATP binding site [chemical binding]; other site 431947002352 Walker B motif; other site 431947002353 arginine finger; other site 431947002354 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 431947002355 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 431947002356 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 431947002357 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 431947002358 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 431947002359 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 431947002360 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 431947002361 Peptidase C10 family; Region: Peptidase_C10; pfam01640 431947002362 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 431947002363 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 431947002364 homopentamer interface [polypeptide binding]; other site 431947002365 active site 431947002366 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 431947002367 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 431947002368 TPR motif; other site 431947002369 binding surface 431947002370 Tetratricopeptide repeat; Region: TPR_12; pfam13424 431947002371 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 431947002372 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 431947002373 active site 431947002374 phosphorylation site [posttranslational modification] 431947002375 intermolecular recognition site; other site 431947002376 dimerization interface [polypeptide binding]; other site 431947002377 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 431947002378 DNA binding residues [nucleotide binding] 431947002379 dimerization interface [polypeptide binding]; other site 431947002380 Tetratricopeptide repeat; Region: TPR_12; pfam13424 431947002381 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 431947002382 binding surface 431947002383 TPR motif; other site 431947002384 Tetratricopeptide repeat; Region: TPR_12; pfam13424 431947002385 Tetratricopeptide repeat; Region: TPR_12; pfam13424 431947002386 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 431947002387 binding surface 431947002388 TPR motif; other site 431947002389 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 431947002390 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 431947002391 ATP binding site [chemical binding]; other site 431947002392 Mg2+ binding site [ion binding]; other site 431947002393 G-X-G motif; other site 431947002394 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 431947002395 heterodimer interface [polypeptide binding]; other site 431947002396 active site 431947002397 FMN binding site [chemical binding]; other site 431947002398 homodimer interface [polypeptide binding]; other site 431947002399 substrate binding site [chemical binding]; other site 431947002400 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 431947002401 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 431947002402 FAD binding pocket [chemical binding]; other site 431947002403 FAD binding motif [chemical binding]; other site 431947002404 phosphate binding motif [ion binding]; other site 431947002405 beta-alpha-beta structure motif; other site 431947002406 NAD binding pocket [chemical binding]; other site 431947002407 Iron coordination center [ion binding]; other site 431947002408 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 431947002409 non-specific DNA binding site [nucleotide binding]; other site 431947002410 salt bridge; other site 431947002411 sequence-specific DNA binding site [nucleotide binding]; other site 431947002412 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 431947002413 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 431947002414 Predicted double-stranded RNA/RNA-DNA hybrid binding protein [General function prediction only]; Region: COG3341 431947002415 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 431947002416 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 431947002417 RNA/DNA hybrid binding site [nucleotide binding]; other site 431947002418 active site 431947002419 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 431947002420 binding surface 431947002421 TPR motif; other site 431947002422 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 431947002423 binding surface 431947002424 TPR motif; other site 431947002425 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 431947002426 TPR motif; other site 431947002427 binding surface 431947002428 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 431947002429 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 431947002430 trimer interface [polypeptide binding]; other site 431947002431 putative metal binding site [ion binding]; other site 431947002432 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 431947002433 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 431947002434 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 431947002435 active site 431947002436 Domain of unknown function (DUF4301); Region: DUF4301; pfam14134 431947002437 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 431947002438 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 431947002439 nucleotide binding site [chemical binding]; other site 431947002440 NEF interaction site [polypeptide binding]; other site 431947002441 SBD interface [polypeptide binding]; other site 431947002442 Protein of unknown function (DUF3946); Region: DUF3946; pfam13102 431947002443 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 431947002444 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 431947002445 Int/Topo IB signature motif; other site 431947002446 Transposase domain (DUF772); Region: DUF772; pfam05598 431947002447 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 431947002448 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 431947002449 Virulence-associated protein E; Region: VirE; pfam05272 431947002450 CHC2 zinc finger; Region: zf-CHC2; cl17510 431947002451 Toprim-like; Region: Toprim_2; pfam13155 431947002452 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 431947002453 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 431947002454 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 431947002455 non-specific DNA binding site [nucleotide binding]; other site 431947002456 salt bridge; other site 431947002457 sequence-specific DNA binding site [nucleotide binding]; other site 431947002458 SIR2-like domain; Region: SIR2_2; pfam13289 431947002459 Domain of unknown function DUF87; Region: DUF87; pfam01935 431947002460 Domain of unknown function DUF87; Region: DUF87; pfam01935 431947002461 HerA helicase [Replication, recombination, and repair]; Region: COG0433 431947002462 Divergent AAA domain; Region: AAA_4; pfam04326 431947002463 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 431947002464 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 431947002465 Coenzyme A binding pocket [chemical binding]; other site 431947002466 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 431947002467 Divergent AAA domain; Region: AAA_4; pfam04326 431947002468 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 431947002469 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 431947002470 putative DNA binding site [nucleotide binding]; other site 431947002471 putative Zn2+ binding site [ion binding]; other site 431947002472 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 431947002473 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 431947002474 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 431947002475 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 431947002476 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 431947002477 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 431947002478 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 431947002479 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 431947002480 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 431947002481 putative ligand binding site [chemical binding]; other site 431947002482 putative NAD binding site [chemical binding]; other site 431947002483 catalytic site [active] 431947002484 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 431947002485 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 431947002486 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 431947002487 catalytic residue [active] 431947002488 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 431947002489 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 431947002490 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 431947002491 active site 431947002492 oxyanion hole [active] 431947002493 catalytic triad [active] 431947002494 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 431947002495 active site 431947002496 catalytic triad [active] 431947002497 oxyanion hole [active] 431947002498 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 431947002499 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 431947002500 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 431947002501 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 431947002502 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 431947002503 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 431947002504 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 431947002505 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 431947002506 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 431947002507 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 431947002508 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 431947002509 Walker A/P-loop; other site 431947002510 ATP binding site [chemical binding]; other site 431947002511 Q-loop/lid; other site 431947002512 ABC transporter signature motif; other site 431947002513 Walker B; other site 431947002514 D-loop; other site 431947002515 H-loop/switch region; other site 431947002516 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 431947002517 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 431947002518 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 431947002519 Walker A/P-loop; other site 431947002520 ATP binding site [chemical binding]; other site 431947002521 Q-loop/lid; other site 431947002522 ABC transporter signature motif; other site 431947002523 Walker B; other site 431947002524 D-loop; other site 431947002525 H-loop/switch region; other site 431947002526 Homologues of TraJ from Bacteroides conjugative transposon; Region: CtnDOT_TraJ; pfam07863 431947002527 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 431947002528 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 431947002529 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 431947002530 protein binding site [polypeptide binding]; other site 431947002531 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 431947002532 Catalytic dyad [active] 431947002533 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 431947002534 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 431947002535 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 431947002536 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 431947002537 Transposase [DNA replication, recombination, and repair]; Region: COG5433 431947002538 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 431947002539 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 431947002540 Protein of unknown function with HXXEE motif; Region: HXXEE; pfam13787 431947002541 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 431947002542 non-specific DNA binding site [nucleotide binding]; other site 431947002543 salt bridge; other site 431947002544 sequence-specific DNA binding site [nucleotide binding]; other site 431947002545 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 431947002546 TIGR01777 family protein; Region: yfcH 431947002547 putative NAD(P) binding site [chemical binding]; other site 431947002548 putative active site [active] 431947002549 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 431947002550 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 431947002551 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 431947002552 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 431947002553 active site 431947002554 dimer interface [polypeptide binding]; other site 431947002555 motif 1; other site 431947002556 motif 2; other site 431947002557 motif 3; other site 431947002558 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 431947002559 anticodon binding site; other site 431947002560 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 431947002561 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 431947002562 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 431947002563 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 431947002564 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 431947002565 23S rRNA binding site [nucleotide binding]; other site 431947002566 L21 binding site [polypeptide binding]; other site 431947002567 L13 binding site [polypeptide binding]; other site 431947002568 Transposase domain (DUF772); Region: DUF772; pfam05598 431947002569 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 431947002570 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 431947002571 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 431947002572 Domain of unknown function (DUF4252); Region: DUF4252; pfam14060 431947002573 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 431947002574 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 431947002575 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 431947002576 DNA binding residues [nucleotide binding] 431947002577 Transposase domain (DUF772); Region: DUF772; pfam05598 431947002578 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 431947002579 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 431947002580 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 431947002581 TPR repeat; Region: TPR_11; pfam13414 431947002582 binding surface 431947002583 TPR motif; other site 431947002584 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 431947002585 binding surface 431947002586 TPR repeat; Region: TPR_11; pfam13414 431947002587 TPR motif; other site 431947002588 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 431947002589 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 431947002590 binding surface 431947002591 TPR motif; other site 431947002592 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 431947002593 binding surface 431947002594 TPR motif; other site 431947002595 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 431947002596 binding surface 431947002597 TPR motif; other site 431947002598 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 431947002599 Surface antigen; Region: Bac_surface_Ag; pfam01103 431947002600 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 431947002601 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 431947002602 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 431947002603 shikimate binding site; other site 431947002604 NAD(P) binding site [chemical binding]; other site 431947002605 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 431947002606 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 431947002607 S-adenosylmethionine binding site [chemical binding]; other site 431947002608 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 431947002609 ATP binding site [chemical binding]; other site 431947002610 active site 431947002611 substrate binding site [chemical binding]; other site 431947002612 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 431947002613 PhoH-like protein; Region: PhoH; pfam02562 431947002614 alpha-1,2-mannosidase, putative; Region: aman2_put; TIGR01180 431947002615 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 431947002616 Queuosine biosynthesis protein; Region: Queuosine_synth; pfam02547 431947002617 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 431947002618 Restriction endonuclease [Defense mechanisms]; Region: Mrr; COG1715 431947002619 Mrr N-terminal domain; Region: Mrr_N; pfam14338 431947002620 Restriction endonuclease; Region: Mrr_cat; pfam04471 431947002621 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 431947002622 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 431947002623 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 431947002624 prolyl-tRNA synthetase; Provisional; Region: PRK08661 431947002625 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 431947002626 dimer interface [polypeptide binding]; other site 431947002627 motif 1; other site 431947002628 active site 431947002629 motif 2; other site 431947002630 motif 3; other site 431947002631 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 431947002632 anticodon binding site; other site 431947002633 zinc-binding site [ion binding]; other site 431947002634 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 431947002635 S-adenosylmethionine binding site [chemical binding]; other site 431947002636 Domain of unknown function DUF59; Region: DUF59; pfam01883 431947002637 cell division ATPase MinD, archaeal; Region: minD_arch; TIGR01969 431947002638 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 431947002639 Walker A motif; other site 431947002640 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 431947002641 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 431947002642 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 431947002643 active site 431947002644 Riboflavin kinase; Region: Flavokinase; pfam01687 431947002645 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 431947002646 Peptidase family M23; Region: Peptidase_M23; pfam01551 431947002647 Domain of unknown function (DUF4292); Region: DUF4292; pfam14125 431947002648 TPR repeat; Region: TPR_11; pfam13414 431947002649 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 431947002650 binding surface 431947002651 TPR motif; other site 431947002652 TPR repeat; Region: TPR_11; pfam13414 431947002653 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 431947002654 binding surface 431947002655 TPR motif; other site 431947002656 Tetratricopeptide repeat; Region: TPR_16; pfam13432 431947002657 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 431947002658 TPR motif; other site 431947002659 binding surface 431947002660 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 431947002661 trimer interface [polypeptide binding]; other site 431947002662 active site 431947002663 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Provisional; Region: PRK02048 431947002664 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 431947002665 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 431947002666 AIR carboxylase; Region: AIRC; pfam00731 431947002667 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 431947002668 lipoyl attachment site [posttranslational modification]; other site 431947002669 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 431947002670 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 431947002671 AMP nucleosidase; Provisional; Region: PRK07115 431947002672 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N_2; pfam13588 431947002673 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 431947002674 ATP-binding cassette domain of an uncharacterized transporter; Region: ABC_putative_ATPase; cd03269 431947002675 Walker A/P-loop; other site 431947002676 ATP binding site [chemical binding]; other site 431947002677 Q-loop/lid; other site 431947002678 ABC transporter signature motif; other site 431947002679 Walker B; other site 431947002680 D-loop; other site 431947002681 H-loop/switch region; other site 431947002682 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 431947002683 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 431947002684 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 431947002685 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 431947002686 Protein of unknown function (DUF1661); Region: DUF1661; pfam07877 431947002687 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 431947002688 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 431947002689 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 431947002690 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 431947002691 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 431947002692 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 431947002693 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 431947002694 motif II; other site 431947002695 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 431947002696 LytTr DNA-binding domain; Region: LytTR; cl04498 431947002697 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 431947002698 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14609 431947002699 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 431947002700 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 431947002701 hypothetical protein; Provisional; Region: PRK00955 431947002702 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 431947002703 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 431947002704 elongation factor G; Reviewed; Region: PRK12740 431947002705 G1 box; other site 431947002706 putative GEF interaction site [polypeptide binding]; other site 431947002707 GTP/Mg2+ binding site [chemical binding]; other site 431947002708 Switch I region; other site 431947002709 G2 box; other site 431947002710 G3 box; other site 431947002711 Switch II region; other site 431947002712 G4 box; other site 431947002713 G5 box; other site 431947002714 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 431947002715 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 431947002716 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 431947002717 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 431947002718 Predicted metal-binding protein (DUF2103); Region: DUF2103; cl01651 431947002719 DNA polymerase III subunit delta'; Validated; Region: PRK08485 431947002720 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 431947002721 AAA domain; Region: AAA_14; pfam13173 431947002722 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 431947002723 Response regulator receiver domain; Region: Response_reg; pfam00072 431947002724 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 431947002725 active site 431947002726 phosphorylation site [posttranslational modification] 431947002727 intermolecular recognition site; other site 431947002728 dimerization interface [polypeptide binding]; other site 431947002729 PglZ domain; Region: PglZ; pfam08665 431947002730 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 431947002731 thymidine kinase; Provisional; Region: PRK04296 431947002732 5'-nucleotidase, lipoprotein e(P4) family; Region: lipo_e_P4; TIGR01533 431947002733 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 431947002734 Ribosome-binding factor A; Region: RBFA; pfam02033 431947002735 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 431947002736 FtsX-like permease family; Region: FtsX; pfam02687 431947002737 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 431947002738 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 431947002739 Ligand binding site; other site 431947002740 Putative Catalytic site; other site 431947002741 DXD motif; other site 431947002742 dihydroorotase; Reviewed; Region: PRK09236 431947002743 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 431947002744 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 431947002745 active site 431947002746 Predicted membrane protein [Function unknown]; Region: COG2246 431947002747 GtrA-like protein; Region: GtrA; pfam04138 431947002748 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 431947002749 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 431947002750 phosphopeptide binding site; other site 431947002751 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 431947002752 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 431947002753 putative active site [active] 431947002754 NlpE N-terminal domain; Region: NlpE; pfam04170 431947002755 Pyruvoyl-dependent arginine decarboxylase (PvlArgDC); Region: PvlArgDC; cl00849 431947002756 alpha-1,2-mannosidase, putative; Region: aman2_put; TIGR01180 431947002757 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 431947002758 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 431947002759 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 431947002760 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 431947002761 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 431947002762 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 431947002763 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 431947002764 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 431947002765 active site 431947002766 nucleophile elbow; other site 431947002767 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_3; cd11349 431947002768 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 431947002769 active site 431947002770 catalytic site [active] 431947002771 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 431947002772 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 431947002773 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 431947002774 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 431947002775 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 431947002776 hypothetical protein; Reviewed; Region: PRK00024 431947002777 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 431947002778 MPN+ (JAMM) motif; other site 431947002779 Zinc-binding site [ion binding]; other site 431947002780 hybrid cluster protein; Provisional; Region: PRK05290 431947002781 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 431947002782 ACS interaction site; other site 431947002783 CODH interaction site; other site 431947002784 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 431947002785 hybrid metal cluster; other site 431947002786 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 431947002787 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 431947002788 active site 431947002789 dimer interface [polypeptide binding]; other site 431947002790 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 431947002791 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 431947002792 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 431947002793 active site 431947002794 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 431947002795 catalytic center binding site [active] 431947002796 ATP binding site [chemical binding]; other site 431947002797 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 431947002798 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 431947002799 Chorismate mutase type II; Region: CM_2; smart00830 431947002800 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 431947002801 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 431947002802 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u7; cd10931 431947002803 putative active site [active] 431947002804 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 431947002805 recombinase A; Provisional; Region: recA; PRK09354 431947002806 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 431947002807 hexamer interface [polypeptide binding]; other site 431947002808 Walker A motif; other site 431947002809 ATP binding site [chemical binding]; other site 431947002810 Walker B motif; other site 431947002811 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 431947002812 catalytic triad [active] 431947002813 Homologues of TraJ from Bacteroides conjugative transposon; Region: CtnDOT_TraJ; pfam07863 431947002814 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 431947002815 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 431947002816 gliding motility-associated lipoprotein GldB; Region: GldB_lipo; TIGR03514 431947002817 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 431947002818 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 431947002819 trmE is a tRNA modification GTPase; Region: trmE; cd04164 431947002820 G1 box; other site 431947002821 GTP/Mg2+ binding site [chemical binding]; other site 431947002822 Switch I region; other site 431947002823 G2 box; other site 431947002824 Switch II region; other site 431947002825 G3 box; other site 431947002826 G4 box; other site 431947002827 G5 box; other site 431947002828 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 431947002829 Integrase core domain; Region: rve_3; cl15866 431947002830 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 431947002831 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 431947002832 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 431947002833 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 431947002834 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 431947002835 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 431947002836 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 431947002837 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 431947002838 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 431947002839 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 431947002840 substrate binding site [chemical binding]; other site 431947002841 nucleotide binding site [chemical binding]; other site 431947002842 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 431947002843 nucleotide binding site [chemical binding]; other site 431947002844 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 431947002845 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 431947002846 FeS/SAM binding site; other site 431947002847 Phosphotransferase enzyme family; Region: APH; pfam01636 431947002848 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 431947002849 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 431947002850 active site 431947002851 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 431947002852 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 431947002853 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 431947002854 catalytic residue [active] 431947002855 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 431947002856 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 431947002857 Transposase domain (DUF772); Region: DUF772; pfam05598 431947002858 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 431947002859 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 431947002860 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 431947002861 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 431947002862 NADP-binding site; other site 431947002863 homotetramer interface [polypeptide binding]; other site 431947002864 substrate binding site [chemical binding]; other site 431947002865 homodimer interface [polypeptide binding]; other site 431947002866 active site 431947002867 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 431947002868 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 431947002869 NADP binding site [chemical binding]; other site 431947002870 active site 431947002871 putative substrate binding site [chemical binding]; other site 431947002872 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 431947002873 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 431947002874 homodimer interface [polypeptide binding]; other site 431947002875 substrate-cofactor binding pocket; other site 431947002876 catalytic residue [active] 431947002877 Putative catalytic domain, repeat 1, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_1; cd09172 431947002878 PLD-like domain; Region: PLDc_2; pfam13091 431947002879 putative active site [active] 431947002880 catalytic site [active] 431947002881 Putative catalytic domain, repeat 2, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_2; cd09173 431947002882 PLD-like domain; Region: PLDc_2; pfam13091 431947002883 putative active site [active] 431947002884 catalytic site [active] 431947002885 FeoA domain; Region: FeoA; pfam04023 431947002886 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 431947002887 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 431947002888 G1 box; other site 431947002889 GTP/Mg2+ binding site [chemical binding]; other site 431947002890 Switch I region; other site 431947002891 G2 box; other site 431947002892 G3 box; other site 431947002893 Switch II region; other site 431947002894 G4 box; other site 431947002895 G5 box; other site 431947002896 Nucleoside recognition; Region: Gate; pfam07670 431947002897 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 431947002898 Nucleoside recognition; Region: Gate; pfam07670 431947002899 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 431947002900 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 431947002901 RNA binding site [nucleotide binding]; other site 431947002902 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 431947002903 RNA binding site [nucleotide binding]; other site 431947002904 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 431947002905 RNA binding site [nucleotide binding]; other site 431947002906 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 431947002907 RNA binding site [nucleotide binding]; other site 431947002908 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 431947002909 RNA binding site [nucleotide binding]; other site 431947002910 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 431947002911 RNA binding site [nucleotide binding]; other site 431947002912 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 431947002913 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 431947002914 S-adenosylmethionine binding site [chemical binding]; other site 431947002915 Protein of unknown function (DUF3822); Region: DUF3822; pfam12864 431947002916 AAA domain; Region: AAA_30; pfam13604 431947002917 Family description; Region: UvrD_C_2; pfam13538 431947002918 Protein of unknown function (DUF3078); Region: DUF3078; pfam11276 431947002919 glycine dehydrogenase; Provisional; Region: PRK05367 431947002920 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 431947002921 tetramer interface [polypeptide binding]; other site 431947002922 pyridoxal 5'-phosphate binding site [chemical binding]; other site 431947002923 catalytic residue [active] 431947002924 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 431947002925 tetramer interface [polypeptide binding]; other site 431947002926 pyridoxal 5'-phosphate binding site [chemical binding]; other site 431947002927 catalytic residue [active] 431947002928 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 431947002929 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 431947002930 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 431947002931 S-adenosylmethionine binding site [chemical binding]; other site 431947002932 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 431947002933 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 431947002934 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 431947002935 Ligand Binding Site [chemical binding]; other site 431947002936 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 431947002937 active site 431947002938 metal binding site [ion binding]; metal-binding site 431947002939 homotetramer interface [polypeptide binding]; other site 431947002940 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 431947002941 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 431947002942 putative active site [active] 431947002943 putative metal binding site [ion binding]; other site 431947002944 Peptidase family C69; Region: Peptidase_C69; cl17793 431947002945 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 431947002946 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 431947002947 Tetramer interface [polypeptide binding]; other site 431947002948 active site 431947002949 FMN-binding site [chemical binding]; other site 431947002950 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 431947002951 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 431947002952 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 431947002953 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 431947002954 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 431947002955 DNA binding residues [nucleotide binding] 431947002956 Transposase domain (DUF772); Region: DUF772; pfam05598 431947002957 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 431947002958 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 431947002959 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 431947002960 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 431947002961 Potassium binding sites [ion binding]; other site 431947002962 Cesium cation binding sites [ion binding]; other site 431947002963 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 431947002964 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 431947002965 putative active site [active] 431947002966 PhoH-like protein; Region: PhoH; pfam02562 431947002967 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 431947002968 active site 431947002969 putative DNA-binding cleft [nucleotide binding]; other site 431947002970 dimer interface [polypeptide binding]; other site 431947002971 Domain of unknown function (DUF4286); Region: DUF4286; pfam14114 431947002972 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 431947002973 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 431947002974 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 431947002975 pyridoxal 5'-phosphate binding site [chemical binding]; other site 431947002976 homodimer interface [polypeptide binding]; other site 431947002977 catalytic residue [active] 431947002978 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 431947002979 CoA binding domain; Region: CoA_binding_2; pfam13380 431947002980 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 431947002981 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 431947002982 Transposase domain (DUF772); Region: DUF772; pfam05598 431947002983 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 431947002984 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 431947002985 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 431947002986 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 431947002987 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 431947002988 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 431947002989 ligand binding site [chemical binding]; other site 431947002990 homodimer interface [polypeptide binding]; other site 431947002991 NAD(P) binding site [chemical binding]; other site 431947002992 trimer interface B [polypeptide binding]; other site 431947002993 trimer interface A [polypeptide binding]; other site 431947002994 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 431947002995 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 431947002996 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 431947002997 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 431947002998 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 431947002999 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 431947003000 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 431947003001 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 431947003002 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 431947003003 Catalytic site [active] 431947003004 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 431947003005 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 431947003006 active site 431947003007 DNA binding site [nucleotide binding] 431947003008 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 431947003009 L-lactate permease; Region: Lactate_perm; cl00701 431947003010 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 431947003011 Sporulation related domain; Region: SPOR; pfam05036 431947003012 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 431947003013 FAD binding domain; Region: FAD_binding_4; pfam01565 431947003014 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 431947003015 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 431947003016 putative hydrolase; Provisional; Region: PRK02113 431947003017 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 431947003018 Transposase domain (DUF772); Region: DUF772; pfam05598 431947003019 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 431947003020 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 431947003021 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 431947003022 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 431947003023 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 431947003024 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 431947003025 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 431947003026 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 431947003027 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 431947003028 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 431947003029 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 431947003030 hydrophobic ligand binding site; other site 431947003031 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 431947003032 active site 431947003033 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 431947003034 C-N hydrolase family amidase; Provisional; Region: PRK10438 431947003035 putative active site [active] 431947003036 catalytic triad [active] 431947003037 dimer interface [polypeptide binding]; other site 431947003038 multimer interface [polypeptide binding]; other site 431947003039 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 431947003040 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 431947003041 putative acyl-acceptor binding pocket; other site 431947003042 Predicted membrane protein [Function unknown]; Region: COG4905 431947003043 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 431947003044 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 431947003045 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 431947003046 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 431947003047 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 431947003048 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 431947003049 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 431947003050 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 431947003051 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 431947003052 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 431947003053 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 431947003054 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 431947003055 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 431947003056 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 431947003057 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 431947003058 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 431947003059 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 431947003060 RimM N-terminal domain; Region: RimM; pfam01782 431947003061 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 431947003062 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 431947003063 hinge; other site 431947003064 active site 431947003065 Domain of unknown function (DUF4290); Region: DUF4290; pfam14123 431947003066 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 431947003067 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 431947003068 active site 431947003069 dimer interface [polypeptide binding]; other site 431947003070 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 431947003071 dimer interface [polypeptide binding]; other site 431947003072 active site 431947003073 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GpsA; COG0240 431947003074 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 431947003075 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 431947003076 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 431947003077 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 431947003078 dimer interface [polypeptide binding]; other site 431947003079 putative anticodon binding site; other site 431947003080 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 431947003081 motif 1; other site 431947003082 active site 431947003083 motif 2; other site 431947003084 motif 3; other site 431947003085 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 431947003086 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 431947003087 TPR motif; other site 431947003088 binding surface 431947003089 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 431947003090 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 431947003091 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 431947003092 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 431947003093 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 431947003094 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 431947003095 Transposase domain (DUF772); Region: DUF772; pfam05598 431947003096 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 431947003097 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 431947003098 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 431947003099 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 431947003100 active site 2 [active] 431947003101 active site 1 [active] 431947003102 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 431947003103 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 431947003104 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cd05188 431947003105 NAD(P) binding site [chemical binding]; other site 431947003106 lysine-2,3-aminomutase; Region: lys_2_3_AblA; TIGR03820 431947003107 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 431947003108 FeS/SAM binding site; other site 431947003109 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 431947003110 Hsp70 protein; Region: HSP70; pfam00012 431947003111 ATP-binding cassette domain of MutS homologs; Region: ABC_MutS_homologs; cd03243 431947003112 Walker A/P-loop; other site 431947003113 ATP binding site [chemical binding]; other site 431947003114 Q-loop/lid; other site 431947003115 ABC transporter signature motif; other site 431947003116 Walker B; other site 431947003117 D-loop; other site 431947003118 H-loop/switch region; other site 431947003119 D-Lysine 5,6-aminomutase alpha subunit; Region: Lys-AminoMut_A; pfam09043 431947003120 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 431947003121 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 431947003122 B12 binding site [chemical binding]; other site 431947003123 cobalt ligand [ion binding]; other site 431947003124 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 431947003125 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 431947003126 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 431947003127 FAD binding site [chemical binding]; other site 431947003128 homotetramer interface [polypeptide binding]; other site 431947003129 substrate binding pocket [chemical binding]; other site 431947003130 catalytic base [active] 431947003131 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 431947003132 Ligand binding site [chemical binding]; other site 431947003133 Electron transfer flavoprotein domain; Region: ETF; pfam01012 431947003134 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 431947003135 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 431947003136 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 431947003137 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 431947003138 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 431947003139 substrate binding site [chemical binding]; other site 431947003140 oxyanion hole (OAH) forming residues; other site 431947003141 trimer interface [polypeptide binding]; other site 431947003142 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 431947003143 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 431947003144 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 431947003145 Transposase domain (DUF772); Region: DUF772; pfam05598 431947003146 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 431947003147 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 431947003148 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 431947003149 propionate/acetate kinase; Provisional; Region: PRK12379 431947003150 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 431947003151 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 431947003152 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 431947003153 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 431947003154 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 431947003155 catalytic residues [active] 431947003156 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 431947003157 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 431947003158 FeS/SAM binding site; other site 431947003159 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 431947003160 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 431947003161 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 431947003162 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 431947003163 active site 431947003164 phosphorylation site [posttranslational modification] 431947003165 intermolecular recognition site; other site 431947003166 dimerization interface [polypeptide binding]; other site 431947003167 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 431947003168 DNA binding site [nucleotide binding] 431947003169 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 431947003170 DHH family; Region: DHH; pfam01368 431947003171 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 431947003172 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 431947003173 active site 431947003174 substrate binding site [chemical binding]; other site 431947003175 metal binding site [ion binding]; metal-binding site 431947003176 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 431947003177 TRAM domain; Region: TRAM; cl01282 431947003178 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 431947003179 S-adenosylmethionine binding site [chemical binding]; other site 431947003180 Transposase domain (DUF772); Region: DUF772; pfam05598 431947003181 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 431947003182 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 431947003183 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 431947003184 GSCFA family; Region: GSCFA; pfam08885 431947003185 putative bifunctional UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase/alanine racemase; Provisional; Region: PRK11930 431947003186 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 431947003187 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 431947003188 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 431947003189 active site 431947003190 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 431947003191 dimer interface [polypeptide binding]; other site 431947003192 substrate binding site [chemical binding]; other site 431947003193 catalytic residues [active] 431947003194 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 431947003195 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 431947003196 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 431947003197 putative active site [active] 431947003198 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 431947003199 putative transporter; Provisional; Region: PRK10484 431947003200 Na(+)/iodide (NIS) and Na(+)/multivitamin (SMVT) cotransporters, and related proteins; solute binding domain; Region: SLC5sbd_NIS-like; cd10326 431947003201 Na binding site [ion binding]; other site 431947003202 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 431947003203 recombination factor protein RarA; Reviewed; Region: PRK13342 431947003204 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 431947003205 Walker A motif; other site 431947003206 ATP binding site [chemical binding]; other site 431947003207 Walker B motif; other site 431947003208 arginine finger; other site 431947003209 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 431947003210 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 431947003211 S-adenosylmethionine binding site [chemical binding]; other site 431947003212 RNA polymerase sigma-54 factor; Region: rpoN_sigma; TIGR02395 431947003213 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 431947003214 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 431947003215 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 431947003216 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 431947003217 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 431947003218 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 431947003219 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 431947003220 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 431947003221 tetramerization interface [polypeptide binding]; other site 431947003222 active site 431947003223 signal recognition particle protein; Provisional; Region: PRK10867 431947003224 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 431947003225 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 431947003226 P loop; other site 431947003227 GTP binding site [chemical binding]; other site 431947003228 Signal peptide binding domain; Region: SRP_SPB; pfam02978 431947003229 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14185 431947003230 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 431947003231 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 431947003232 homodimer interface [polypeptide binding]; other site 431947003233 NADP binding site [chemical binding]; other site 431947003234 substrate binding site [chemical binding]; other site 431947003235 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 431947003236 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 431947003237 cation binding site [ion binding]; other site 431947003238 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 431947003239 Clp amino terminal domain; Region: Clp_N; pfam02861 431947003240 Clp amino terminal domain; Region: Clp_N; pfam02861 431947003241 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 431947003242 Walker A motif; other site 431947003243 ATP binding site [chemical binding]; other site 431947003244 Walker B motif; other site 431947003245 arginine finger; other site 431947003246 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 431947003247 Walker A motif; other site 431947003248 ATP binding site [chemical binding]; other site 431947003249 Walker B motif; other site 431947003250 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 431947003251 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 431947003252 Dynamin family; Region: Dynamin_N; pfam00350 431947003253 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 431947003254 GTP/Mg2+ binding site [chemical binding]; other site 431947003255 G1 box; other site 431947003256 G2 box; other site 431947003257 Switch I region; other site 431947003258 Protein of unknown function (DUF1426); Region: DUF1426; pfam07234 431947003259 Domain of unknown function DUF87; Region: DUF87; pfam01935 431947003260 AAA-like domain; Region: AAA_10; pfam12846 431947003261 A nuclease family of the HNH/ENDO VII superfamily with conserved AHH; Region: AHH; pfam14412 431947003262 Transposase domain (DUF772); Region: DUF772; pfam05598 431947003263 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 431947003264 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 431947003265 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 431947003266 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 431947003267 putative dimer interface [polypeptide binding]; other site 431947003268 putative anticodon binding site; other site 431947003269 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 431947003270 homodimer interface [polypeptide binding]; other site 431947003271 motif 1; other site 431947003272 motif 2; other site 431947003273 active site 431947003274 motif 3; other site 431947003275 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 431947003276 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 431947003277 RNA binding surface [nucleotide binding]; other site 431947003278 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 431947003279 active site 431947003280 adenylosuccinate lyase; Provisional; Region: PRK09285 431947003281 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 431947003282 tetramer interface [polypeptide binding]; other site 431947003283 active site 431947003284 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 431947003285 uracil transporter; Provisional; Region: PRK10720 431947003286 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 431947003287 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 431947003288 putative DNA binding site [nucleotide binding]; other site 431947003289 putative Zn2+ binding site [ion binding]; other site 431947003290 AsnC family; Region: AsnC_trans_reg; pfam01037 431947003291 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 431947003292 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 431947003293 generic binding surface II; other site 431947003294 generic binding surface I; other site 431947003295 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 431947003296 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 431947003297 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 431947003298 active site 431947003299 dimer interface [polypeptide binding]; other site 431947003300 effector binding site; other site 431947003301 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 431947003302 TSCPD domain; Region: TSCPD; cl14834 431947003303 Tetratricopeptide repeat; Region: TPR_12; pfam13424 431947003304 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 431947003305 TPR motif; other site 431947003306 Tetratricopeptide repeat; Region: TPR_12; pfam13424 431947003307 binding surface 431947003308 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 431947003309 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 431947003310 HIGH motif; other site 431947003311 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 431947003312 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 431947003313 active site 431947003314 KMSKS motif; other site 431947003315 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 431947003316 tRNA binding surface [nucleotide binding]; other site 431947003317 anticodon binding site; other site 431947003318 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 431947003319 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 431947003320 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 431947003321 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 431947003322 Bacterial sugar transferase; Region: Bac_transf; pfam02397 431947003323 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 431947003324 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 431947003325 Ligand Binding Site [chemical binding]; other site 431947003326 Molecular Tunnel; other site 431947003327 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 431947003328 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 431947003329 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 431947003330 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 431947003331 inhibitor-cofactor binding pocket; inhibition site 431947003332 pyridoxal 5'-phosphate binding site [chemical binding]; other site 431947003333 catalytic residue [active] 431947003334 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 431947003335 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 431947003336 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 431947003337 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 431947003338 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 431947003339 Probable Catalytic site; other site 431947003340 metal-binding site 431947003341 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 431947003342 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 431947003343 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 431947003344 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 431947003345 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 431947003346 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 431947003347 This domain is found in peptide chain release factors; Region: PCRF; smart00937 431947003348 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 431947003349 RF-1 domain; Region: RF-1; pfam00472 431947003350 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 431947003351 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 431947003352 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 431947003353 acyl-activating enzyme (AAE) consensus motif; other site 431947003354 putative AMP binding site [chemical binding]; other site 431947003355 putative active site [active] 431947003356 putative CoA binding site [chemical binding]; other site 431947003357 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 431947003358 SIR2-like domain; Region: SIR2_2; pfam13289 431947003359 AAA ATPase domain; Region: AAA_16; pfam13191 431947003360 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 431947003361 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 431947003362 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 431947003363 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 431947003364 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 431947003365 binding surface 431947003366 TPR motif; other site 431947003367 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 431947003368 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 431947003369 putative ADP-binding pocket [chemical binding]; other site 431947003370 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 431947003371 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 431947003372 dimer interface [polypeptide binding]; other site 431947003373 active site 431947003374 metal binding site [ion binding]; metal-binding site 431947003375 Protein of unknown function (DUF4254); Region: DUF4254; pfam14063 431947003376 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 431947003377 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 431947003378 putative active site [active] 431947003379 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 431947003380 RNA binding surface [nucleotide binding]; other site 431947003381 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 431947003382 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 431947003383 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 431947003384 pyridoxal 5'-phosphate binding site [chemical binding]; other site 431947003385 homodimer interface [polypeptide binding]; other site 431947003386 catalytic residue [active] 431947003387 cobyric acid synthase; Provisional; Region: PRK00784 431947003388 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 431947003389 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 431947003390 catalytic triad [active] 431947003391 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 431947003392 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 431947003393 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 431947003394 catalytic triad [active] 431947003395 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 431947003396 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 431947003397 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 431947003398 motif II; other site 431947003399 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 431947003400 Cysteine-rich domain; Region: CCG; pfam02754 431947003401 Cysteine-rich domain; Region: CCG; pfam02754 431947003402 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 431947003403 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 431947003404 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 431947003405 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 431947003406 CoenzymeA binding site [chemical binding]; other site 431947003407 subunit interaction site [polypeptide binding]; other site 431947003408 PHB binding site; other site 431947003409 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 431947003410 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 431947003411 active site 431947003412 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 431947003413 substrate binding site [chemical binding]; other site 431947003414 catalytic residues [active] 431947003415 dimer interface [polypeptide binding]; other site 431947003416 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 431947003417 UbiA prenyltransferase family; Region: UbiA; pfam01040 431947003418 Penicillinase repressor; Region: Pencillinase_R; pfam03965 431947003419 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 431947003420 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 431947003421 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 431947003422 Transposase domain (DUF772); Region: DUF772; pfam05598 431947003423 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 431947003424 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 431947003425 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 431947003426 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 431947003427 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 431947003428 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 431947003429 Transposase domain (DUF772); Region: DUF772; pfam05598 431947003430 Bacteroides conjugative transposon TraM protein; Region: Bac_Flav_CT_M; TIGR03779 431947003431 Protein of unknown function (DUF3714); Region: DUF3714; pfam12508 431947003432 Bacteroides conjugative transposon TraN protein; Region: Bac_Flav_CT_N; TIGR03780 431947003433 Domain of unknown function (DUF4138); Region: DUF4138; pfam13595 431947003434 Conjugative transposon protein TraO; Region: TraO; pfam10626 431947003435 CHC2 zinc finger; Region: zf-CHC2; cl17510 431947003436 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 431947003437 active site 431947003438 metal binding site [ion binding]; metal-binding site 431947003439 interdomain interaction site; other site 431947003440 Domain of unknown function, B. Theta Gene description (DUF3872); Region: DUF3872; pfam12988 431947003441 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 431947003442 catalytic residue [active] 431947003443 MTH538 TIR-like domain (DUF1863); Region: DUF1863; pfam08937 431947003444 Domain of unknown function (DUF4071); Region: DUF4071; pfam13281 431947003445 PcfJ-like protein; Region: PcfJ; pfam14284 431947003446 Antirestriction protein (ArdA); Region: ArdA; cl01953 431947003447 PcfK-like protein; Region: PcfK; pfam14058 431947003448 Tetratricopeptide repeat; Region: TPR_16; pfam13432 431947003449 Tetratricopeptide repeat; Region: TPR_6; pfam13174 431947003450 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 431947003451 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 431947003452 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 431947003453 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 431947003454 ligand binding site [chemical binding]; other site 431947003455 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 431947003456 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 431947003457 FeS/SAM binding site; other site 431947003458 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 431947003459 active site 431947003460 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 431947003461 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 431947003462 ligand binding site [chemical binding]; other site 431947003463 flexible hinge region; other site 431947003464 helix_turn_helix, cAMP Regulatory protein; Region: HTH_CRP; smart00419 431947003465 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 431947003466 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 431947003467 DNA binding residues [nucleotide binding] 431947003468 O-Antigen ligase; Region: Wzy_C; pfam04932 431947003469 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 431947003470 mce related protein; Region: MCE; pfam02470 431947003471 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 431947003472 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 431947003473 active site 431947003474 metal binding site [ion binding]; metal-binding site 431947003475 Sporulation related domain; Region: SPOR; cl10051 431947003476 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 431947003477 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 431947003478 This entry represents the core domain of the ferrous iron (Fe2+) transport protein FeoA found in bacteria; Region: FeoA; smart00899 431947003479 FeoA domain; Region: FeoA; pfam04023 431947003480 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 431947003481 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 431947003482 G1 box; other site 431947003483 GTP/Mg2+ binding site [chemical binding]; other site 431947003484 Switch I region; other site 431947003485 G2 box; other site 431947003486 G3 box; other site 431947003487 Switch II region; other site 431947003488 G4 box; other site 431947003489 G5 box; other site 431947003490 Nucleoside recognition; Region: Gate; pfam07670 431947003491 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 431947003492 Nucleoside recognition; Region: Gate; pfam07670 431947003493 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 431947003494 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 431947003495 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 431947003496 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 431947003497 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 431947003498 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 431947003499 Sulfatase; Region: Sulfatase; pfam00884 431947003500 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 431947003501 Part of AAA domain; Region: AAA_19; pfam13245 431947003502 Family description; Region: UvrD_C_2; pfam13538 431947003503 SWIM zinc finger; Region: SWIM; pfam04434 431947003504 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 431947003505 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 431947003506 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 431947003507 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 431947003508 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 431947003509 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 431947003510 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 431947003511 Walker A/P-loop; other site 431947003512 ATP binding site [chemical binding]; other site 431947003513 Q-loop/lid; other site 431947003514 ABC transporter signature motif; other site 431947003515 Walker B; other site 431947003516 D-loop; other site 431947003517 H-loop/switch region; other site 431947003518 Transposase domain (DUF772); Region: DUF772; pfam05598 431947003519 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 431947003520 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 431947003521 Permease; Region: Permease; pfam02405 431947003522 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 431947003523 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 431947003524 binding surface 431947003525 TPR motif; other site 431947003526 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 431947003527 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 431947003528 TM-ABC transporter signature motif; other site 431947003529 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 431947003530 TM-ABC transporter signature motif; other site 431947003531 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 431947003532 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 431947003533 motif 1; other site 431947003534 dimer interface [polypeptide binding]; other site 431947003535 active site 431947003536 motif 2; other site 431947003537 motif 3; other site 431947003538 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 431947003539 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 431947003540 ligand binding site [chemical binding]; other site 431947003541 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 431947003542 Q-loop/lid; other site 431947003543 ABC transporter signature motif; other site 431947003544 Walker B; other site 431947003545 D-loop; other site 431947003546 H-loop/switch region; other site 431947003547 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 431947003548 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 431947003549 Walker A/P-loop; other site 431947003550 ATP binding site [chemical binding]; other site 431947003551 Q-loop/lid; other site 431947003552 ABC transporter signature motif; other site 431947003553 Walker B; other site 431947003554 D-loop; other site 431947003555 H-loop/switch region; other site 431947003556 para-aminobenzoate synthase component I; Validated; Region: PRK07093 431947003557 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 431947003558 substrate-cofactor binding pocket; other site 431947003559 pyridoxal 5'-phosphate binding site [chemical binding]; other site 431947003560 catalytic residue [active] 431947003561 Cna protein B-type domain; Region: Cna_B_2; pfam13715 431947003562 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 431947003563 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 431947003564 pyruvate phosphate dikinase; Provisional; Region: PRK09279 431947003565 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 431947003566 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 431947003567 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 431947003568 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cd00296 431947003569 TPR repeat; Region: TPR_11; pfam13414 431947003570 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 431947003571 TPR motif; other site 431947003572 binding surface 431947003573 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 431947003574 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 431947003575 TPR motif; other site 431947003576 binding surface 431947003577 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 431947003578 binding surface 431947003579 TPR motif; other site 431947003580 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 431947003581 TPR motif; other site 431947003582 binding surface 431947003583 Tetratricopeptide repeat; Region: TPR_12; pfam13424 431947003584 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 431947003585 TPR motif; other site 431947003586 TPR repeat; Region: TPR_11; pfam13414 431947003587 binding surface 431947003588 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 431947003589 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 431947003590 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 431947003591 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14329 431947003592 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 431947003593 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 431947003594 FeS/SAM binding site; other site 431947003595 TRAM domain; Region: TRAM; pfam01938 431947003596 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 431947003597 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 431947003598 Walker A/P-loop; other site 431947003599 ATP binding site [chemical binding]; other site 431947003600 Q-loop/lid; other site 431947003601 ABC transporter signature motif; other site 431947003602 Walker B; other site 431947003603 D-loop; other site 431947003604 H-loop/switch region; other site 431947003605 envelope glycoprotein E; Provisional; Region: PHA03283 431947003606 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 431947003607 DNA-binding site [nucleotide binding]; DNA binding site 431947003608 Cna protein B-type domain; Region: Cna_B_2; pfam13715 431947003609 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 431947003610 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 431947003611 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 431947003612 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 431947003613 Domain of unknown function (DUF4403); Region: DUF4403; pfam14356 431947003614 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 431947003615 hypothetical protein; Provisional; Region: PRK14851 431947003616 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 431947003617 dimer interface [polypeptide binding]; other site 431947003618 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 431947003619 dimer interface [polypeptide binding]; other site 431947003620 Protein of unknown function (DUF1706); Region: DUF1706; pfam08020 431947003621 A new structural DNA glycosylase; Region: AlkD_like; cl11434 431947003622 active site 431947003623 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 431947003624 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 431947003625 Domain of unknown function (DUF4293); Region: DUF4293; pfam14126 431947003626 Protein of unknown function (DUF3467); Region: DUF3467; pfam11950 431947003627 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 431947003628 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 431947003629 ligand binding site [chemical binding]; other site 431947003630 NAD binding site [chemical binding]; other site 431947003631 catalytic site [active] 431947003632 homodimer interface [polypeptide binding]; other site 431947003633 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 431947003634 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 431947003635 NAD(P) binding site [chemical binding]; other site 431947003636 active site 431947003637 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 431947003638 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 431947003639 substrate binding pocket [chemical binding]; other site 431947003640 membrane-bound complex binding site; other site 431947003641 hinge residues; other site 431947003642 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 431947003643 N-acetyl-D-glucosamine binding site [chemical binding]; other site 431947003644 catalytic residue [active] 431947003645 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 431947003646 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 431947003647 Walker A/P-loop; other site 431947003648 ATP binding site [chemical binding]; other site 431947003649 Q-loop/lid; other site 431947003650 ABC transporter signature motif; other site 431947003651 Walker B; other site 431947003652 D-loop; other site 431947003653 H-loop/switch region; other site 431947003654 ABC transporter; Region: ABC_tran_2; pfam12848 431947003655 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 431947003656 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 431947003657 active site 431947003658 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 431947003659 Zn binding site [ion binding]; other site 431947003660 glutamate dehydrogenase; Provisional; Region: PRK14030 431947003661 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 431947003662 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 431947003663 NAD(P) binding site [chemical binding]; other site 431947003664 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 431947003665 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 431947003666 NAD(P) binding site [chemical binding]; other site 431947003667 active site 431947003668 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 431947003669 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 431947003670 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 431947003671 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 431947003672 DNA binding residues [nucleotide binding] 431947003673 dimerization interface [polypeptide binding]; other site 431947003674 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 431947003675 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 431947003676 active site 431947003677 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 431947003678 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 431947003679 NAD(P) binding site [chemical binding]; other site 431947003680 homotetramer interface [polypeptide binding]; other site 431947003681 homodimer interface [polypeptide binding]; other site 431947003682 active site 431947003683 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 431947003684 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 431947003685 GTP-binding protein LepA; Provisional; Region: PRK05433 431947003686 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 431947003687 G1 box; other site 431947003688 putative GEF interaction site [polypeptide binding]; other site 431947003689 GTP/Mg2+ binding site [chemical binding]; other site 431947003690 Switch I region; other site 431947003691 G2 box; other site 431947003692 G3 box; other site 431947003693 Switch II region; other site 431947003694 G4 box; other site 431947003695 G5 box; other site 431947003696 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 431947003697 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 431947003698 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 431947003699 replicative DNA helicase; Region: DnaB; TIGR00665 431947003700 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 431947003701 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 431947003702 Walker A motif; other site 431947003703 ATP binding site [chemical binding]; other site 431947003704 Walker B motif; other site 431947003705 DNA binding loops [nucleotide binding] 431947003706 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 431947003707 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 431947003708 motif 1; other site 431947003709 active site 431947003710 motif 2; other site 431947003711 motif 3; other site 431947003712 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 431947003713 DHHA1 domain; Region: DHHA1; pfam02272 431947003714 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 431947003715 active site 431947003716 dimer interface [polypeptide binding]; other site 431947003717 metal binding site [ion binding]; metal-binding site 431947003718 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 431947003719 A new structural DNA glycosylase; Region: AlkD_like; cd06561 431947003720 active site 431947003721 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 431947003722 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 431947003723 putative acyl-acceptor binding pocket; other site 431947003724 Homologues of TraJ from Bacteroides conjugative transposon; Region: CtnDOT_TraJ; pfam07863 431947003725 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 431947003726 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 431947003727 FtsX-like permease family; Region: FtsX; pfam02687 431947003728 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 431947003729 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 431947003730 nucleotide binding pocket [chemical binding]; other site 431947003731 K-X-D-G motif; other site 431947003732 catalytic site [active] 431947003733 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 431947003734 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 431947003735 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 431947003736 Dimer interface [polypeptide binding]; other site 431947003737 BRCT sequence motif; other site 431947003738 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 431947003739 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 431947003740 Coenzyme A binding pocket [chemical binding]; other site 431947003741 recombination protein RecR; Reviewed; Region: recR; PRK00076 431947003742 RecR protein; Region: RecR; pfam02132 431947003743 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 431947003744 putative active site [active] 431947003745 putative metal-binding site [ion binding]; other site 431947003746 tetramer interface [polypeptide binding]; other site 431947003747 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 431947003748 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 431947003749 homodimer interface [polypeptide binding]; other site 431947003750 oligonucleotide binding site [chemical binding]; other site 431947003751 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 431947003752 IHF - DNA interface [nucleotide binding]; other site 431947003753 IHF dimer interface [polypeptide binding]; other site 431947003754 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 431947003755 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 431947003756 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 431947003757 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 431947003758 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 431947003759 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 431947003760 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK07111 431947003761 ATP cone domain; Region: ATP-cone; pfam03477 431947003762 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 431947003763 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 431947003764 Transposase domain (DUF772); Region: DUF772; pfam05598 431947003765 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 431947003766 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 431947003767 Delta(1)-pyrroline-5-carboxylate dehydrogenase, ALDH families 4 and 17; Region: ALDH_F4-17_P5CDH; cd07123 431947003768 delta-1-pyrroline-5-carboxylate dehydrogenase, group 1; Region: D1pyr5carbox1; TIGR01236 431947003769 Glutamate binding site [chemical binding]; other site 431947003770 NAD binding site [chemical binding]; other site 431947003771 catalytic residues [active] 431947003772 Uncharacterized protein conserved in bacteria containing a pentein-type domain [Function unknown]; Region: COG4874 431947003773 Amidinotransferase; Region: Amidinotransf; pfam02274 431947003774 ornithine aminotransferase; Region: Orn_aminotrans; TIGR01885 431947003775 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 431947003776 inhibitor-cofactor binding pocket; inhibition site 431947003777 pyridoxal 5'-phosphate binding site [chemical binding]; other site 431947003778 catalytic residue [active] 431947003779 elongation factor P; Validated; Region: PRK00529 431947003780 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 431947003781 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 431947003782 RNA binding site [nucleotide binding]; other site 431947003783 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 431947003784 RNA binding site [nucleotide binding]; other site 431947003785 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 431947003786 putative transporter; Validated; Region: PRK03818 431947003787 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 431947003788 TrkA-C domain; Region: TrkA_C; pfam02080 431947003789 TrkA-C domain; Region: TrkA_C; pfam02080 431947003790 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 431947003791 hypothetical protein; Validated; Region: PRK09104 431947003792 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 431947003793 metal binding site [ion binding]; metal-binding site 431947003794 putative dimer interface [polypeptide binding]; other site 431947003795 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 431947003796 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 431947003797 active site 431947003798 putative substrate binding pocket [chemical binding]; other site 431947003799 purine nucleoside phosphorylase I, inosine and guanosine-specific; Region: PNPH; TIGR01700 431947003800 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 431947003801 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 431947003802 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 431947003803 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 431947003804 dimer interface [polypeptide binding]; other site 431947003805 PYR/PP interface [polypeptide binding]; other site 431947003806 TPP binding site [chemical binding]; other site 431947003807 substrate binding site [chemical binding]; other site 431947003808 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 431947003809 Domain of unknown function; Region: EKR; smart00890 431947003810 4Fe-4S binding domain; Region: Fer4_6; pfam12837 431947003811 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 431947003812 TPP-binding site [chemical binding]; other site 431947003813 dimer interface [polypeptide binding]; other site 431947003814 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 431947003815 AAA domain; Region: AAA_14; pfam13173 431947003816 Transposase domain (DUF772); Region: DUF772; pfam05598 431947003817 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 431947003818 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 431947003819 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 431947003820 Restriction endonuclease EcoRI; Region: EcoRI; pfam02963 431947003821 Restriction endonuclease EcoRI; Region: EcoRI; pfam02963 431947003822 Adenine-specific methyltransferase EcoRI; Region: EcoRI_methylase; pfam13651 431947003823 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 431947003824 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 431947003825 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 431947003826 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 431947003827 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 431947003828 HlyD family secretion protein; Region: HlyD_3; pfam13437 431947003829 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 431947003830 Transposase domain (DUF772); Region: DUF772; pfam05598 431947003831 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 431947003832 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 431947003833 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 431947003834 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 431947003835 metal binding site [ion binding]; metal-binding site 431947003836 dimer interface [polypeptide binding]; other site 431947003837 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 431947003838 Cna protein B-type domain; Region: Cna_B_2; pfam13715 431947003839 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 431947003840 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 431947003841 VanW like protein; Region: VanW; pfam04294 431947003842 NAD synthetase; Reviewed; Region: nadE; PRK02628 431947003843 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 431947003844 multimer interface [polypeptide binding]; other site 431947003845 active site 431947003846 catalytic triad [active] 431947003847 protein interface 1 [polypeptide binding]; other site 431947003848 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 431947003849 homodimer interface [polypeptide binding]; other site 431947003850 NAD binding pocket [chemical binding]; other site 431947003851 ATP binding pocket [chemical binding]; other site 431947003852 Mg binding site [ion binding]; other site 431947003853 active-site loop [active] 431947003854 Transposase domain (DUF772); Region: DUF772; pfam05598 431947003855 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 431947003856 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 431947003857 carbamoyl-phosphate synthase, large subunit; Region: CPSaseII_lrg; TIGR01369 431947003858 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 431947003859 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 431947003860 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 431947003861 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 431947003862 ATP-grasp domain; Region: ATP-grasp_4; cl17255 431947003863 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 431947003864 probable substrate binding site [chemical binding]; other site 431947003865 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 431947003866 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 431947003867 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 431947003868 catalytic site [active] 431947003869 subunit interface [polypeptide binding]; other site 431947003870 amidophosphoribosyltransferase; Provisional; Region: PRK06781 431947003871 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 431947003872 active site 431947003873 membrane protein insertase; Provisional; Region: PRK01318 431947003874 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 431947003875 CTP synthetase; Validated; Region: pyrG; PRK05380 431947003876 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 431947003877 Catalytic site [active] 431947003878 active site 431947003879 UTP binding site [chemical binding]; other site 431947003880 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 431947003881 active site 431947003882 putative oxyanion hole; other site 431947003883 catalytic triad [active] 431947003884 Protein of unknown function (DUF1661); Region: DUF1661; pfam07877 431947003885 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK07107 431947003886 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 431947003887 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 431947003888 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 431947003889 active site 431947003890 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 431947003891 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 431947003892 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 431947003893 oligomerisation interface [polypeptide binding]; other site 431947003894 mobile loop; other site 431947003895 roof hairpin; other site 431947003896 chaperonin GroL; Region: GroEL; TIGR02348 431947003897 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 431947003898 ring oligomerisation interface [polypeptide binding]; other site 431947003899 ATP/Mg binding site [chemical binding]; other site 431947003900 stacking interactions; other site 431947003901 hinge regions; other site 431947003902 CAAX protease self-immunity; Region: Abi; pfam02517 431947003903 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 431947003904 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 431947003905 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 431947003906 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12901 431947003907 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 431947003908 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 431947003909 nucleotide binding region [chemical binding]; other site 431947003910 ATP-binding site [chemical binding]; other site 431947003911 SEC-C motif; Region: SEC-C; pfam02810 431947003912 hypothetical protein; Provisional; Region: PRK11820 431947003913 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 431947003914 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 431947003915 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 431947003916 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 431947003917 catalytic site [active] 431947003918 G-X2-G-X-G-K; other site 431947003919 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 431947003920 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 431947003921 probable rRNA maturation factor YbeY; Region: TIGR00043 431947003922 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 431947003923 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 431947003924 HAD-superfamily subfamily IB hydrolase, TIGR01490; Region: HAD-SF-IB-hyp1 431947003925 Propeptide_C25; Region: Propeptide_C25; pfam08126 431947003926 gingipain subgroup of the Peptidase C25 family N-terminal domain; Region: Peptidase_C25_N_gingipain; cd10913 431947003927 active site 431947003928 Peptidase family C25, C terminal ig-like domain; Region: Peptidase_C25_C; pfam03785 431947003929 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 431947003930 lipoyl synthase; Provisional; Region: PRK05481 431947003931 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 431947003932 FeS/SAM binding site; other site 431947003933 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 431947003934 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 431947003935 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 431947003936 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 431947003937 SmpB-tmRNA interface; other site 431947003938 Predicted permeases [General function prediction only]; Region: COG0795 431947003939 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 431947003940 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 431947003941 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 431947003942 DNA polymerase III subunit delta'; Validated; Region: PRK07993 431947003943 S-ribosylhomocysteinase; Provisional; Region: PRK02260 431947003944 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 431947003945 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 431947003946 Uncharacterized protein conserved in Bacteroidetes; Region: Bacuni_01323_like; cd12871 431947003947 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 431947003948 Peptidase S46; Region: Peptidase_S46; pfam10459 431947003949 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 431947003950 Domain of unknown function (DUF389); Region: DUF389; pfam04087 431947003951 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 431947003952 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 431947003953 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 431947003954 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 431947003955 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 431947003956 Walker A motif; other site 431947003957 ATP binding site [chemical binding]; other site 431947003958 Walker B motif; other site 431947003959 arginine finger; other site 431947003960 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 431947003961 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 431947003962 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 431947003963 DNA binding site [nucleotide binding] 431947003964 active site 431947003965 Preprotein translocase subunit; Region: YajC; pfam02699 431947003966 YbbR-like protein; Region: YbbR; pfam07949 431947003967 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 431947003968 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 431947003969 ATP-binding [chemical binding]; other site 431947003970 CoA-binding site [chemical binding]; other site 431947003971 2-amino-3-ketobutyrate coenzyme A ligase; Provisional; Region: PRK06939 431947003972 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 431947003973 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 431947003974 catalytic residue [active] 431947003975 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 431947003976 active site 431947003977 SAM binding site [chemical binding]; other site 431947003978 homodimer interface [polypeptide binding]; other site 431947003979 Pantoate-beta-alanine ligase; Region: PanC; cd00560 431947003980 pantoate--beta-alanine ligase; Region: panC; TIGR00018 431947003981 active site 431947003982 ATP-binding site [chemical binding]; other site 431947003983 pantoate-binding site; other site 431947003984 HXXH motif; other site 431947003985 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 431947003986 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 431947003987 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 431947003988 FeS/SAM binding site; other site 431947003989 HemN C-terminal domain; Region: HemN_C; pfam06969 431947003990 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 431947003991 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 431947003992 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 431947003993 catalytic residue [active] 431947003994 Domain of unknown function (DUF4248); Region: DUF4248; pfam14053 431947003995 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 431947003996 4Fe-4S binding domain; Region: Fer4; cl02805 431947003997 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 431947003998 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 431947003999 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 431947004000 ligand binding site [chemical binding]; other site 431947004001 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 431947004002 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 431947004003 metal binding site 2 [ion binding]; metal-binding site 431947004004 putative DNA binding helix; other site 431947004005 metal binding site 1 [ion binding]; metal-binding site 431947004006 structural Zn2+ binding site [ion binding]; other site 431947004007 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 431947004008 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 431947004009 GDP-binding site [chemical binding]; other site 431947004010 ACT binding site; other site 431947004011 IMP binding site; other site 431947004012 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 431947004013 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 431947004014 Major Facilitator Superfamily; Region: MFS_1; pfam07690 431947004015 putative substrate translocation pore; other site 431947004016 Predicted membrane protein [Function unknown]; Region: COG3174 431947004017 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 431947004018 SurA N-terminal domain; Region: SurA_N_3; cl07813 431947004019 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 431947004020 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 431947004021 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 431947004022 Domain of unknown function DUF21; Region: DUF21; pfam01595 431947004023 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 431947004024 Transporter associated domain; Region: CorC_HlyC; smart01091 431947004025 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 431947004026 TPR repeat; Region: TPR_11; pfam13414 431947004027 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 431947004028 binding surface 431947004029 TPR motif; other site 431947004030 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 431947004031 pantothenate kinase; Reviewed; Region: PRK13320 431947004032 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 431947004033 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 431947004034 ATP binding site [chemical binding]; other site 431947004035 substrate interface [chemical binding]; other site 431947004036 peptidase T; Region: peptidase-T; TIGR01882 431947004037 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 431947004038 metal binding site [ion binding]; metal-binding site 431947004039 dimer interface [polypeptide binding]; other site 431947004040 OPT oligopeptide transporter protein; Region: OPT; pfam03169 431947004041 putative oligopeptide transporter, OPT family; Region: TIGR00733 431947004042 Cna protein B-type domain; Region: Cna_B_2; pfam13715 431947004043 GLPGLI family protein; Region: GLPGLI; TIGR01200 431947004044 GLPGLI family protein; Region: GLPGLI; TIGR01200 431947004045 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 431947004046 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 431947004047 SLBB domain; Region: SLBB; pfam10531 431947004048 Chain length determinant protein; Region: Wzz; cl15801 431947004049 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 431947004050 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 431947004051 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 431947004052 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 431947004053 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 431947004054 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 431947004055 putative SAM binding site [chemical binding]; other site 431947004056 homodimer interface [polypeptide binding]; other site 431947004057 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 431947004058 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 431947004059 S-adenosylmethionine binding site [chemical binding]; other site 431947004060 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 431947004061 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 431947004062 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 431947004063 TPP-binding site [chemical binding]; other site 431947004064 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 431947004065 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 431947004066 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 431947004067 dimer interface [polypeptide binding]; other site 431947004068 PYR/PP interface [polypeptide binding]; other site 431947004069 TPP binding site [chemical binding]; other site 431947004070 substrate binding site [chemical binding]; other site 431947004071 Protein of unknown function (DUF1661); Region: DUF1661; pfam07877 431947004072 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeC; cd03378 431947004073 active site clefts [active] 431947004074 zinc binding site [ion binding]; other site 431947004075 dimer interface [polypeptide binding]; other site 431947004076 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 431947004077 HlyD family secretion protein; Region: HlyD_3; pfam13437 431947004078 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 431947004079 Protein export membrane protein; Region: SecD_SecF; cl14618 431947004080 Protein export membrane protein; Region: SecD_SecF; cl14618 431947004081 Outer membrane efflux protein; Region: OEP; pfam02321 431947004082 Outer membrane efflux protein; Region: OEP; pfam02321 431947004083 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 431947004084 S-formylglutathione hydrolase; Region: PLN02442 431947004085 Putative esterase; Region: Esterase; pfam00756 431947004086 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 431947004087 Lumazine-binding domain; Region: Lumazine_bd; pfam12870 431947004088 seadornavirus VP3 protein; Region: seadorna_VP3; TIGR04232 431947004089 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 431947004090 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 431947004091 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 431947004092 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 431947004093 Clp protease; Region: CLP_protease; pfam00574 431947004094 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 431947004095 oligomer interface [polypeptide binding]; other site 431947004096 active site residues [active] 431947004097 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 431947004098 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 431947004099 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 431947004100 Walker A motif; other site 431947004101 ATP binding site [chemical binding]; other site 431947004102 Walker B motif; other site 431947004103 arginine finger; other site 431947004104 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 431947004105 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 431947004106 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 431947004107 ATP binding site [chemical binding]; other site 431947004108 putative Mg++ binding site [ion binding]; other site 431947004109 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 431947004110 nucleotide binding region [chemical binding]; other site 431947004111 ATP-binding site [chemical binding]; other site 431947004112 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 431947004113 HRDC domain; Region: HRDC; pfam00570 431947004114 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 431947004115 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 431947004116 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 431947004117 OstA-like protein; Region: OstA_2; pfam13100 431947004118 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 431947004119 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 431947004120 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 431947004121 ATP binding site [chemical binding]; other site 431947004122 Mg2+ binding site [ion binding]; other site 431947004123 G-X-G motif; other site 431947004124 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 431947004125 ATP binding site [chemical binding]; other site 431947004126 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 431947004127 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 431947004128 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 431947004129 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 431947004130 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 431947004131 two-component response regulator VirG; Provisional; Region: PRK13856 431947004132 Cell division protein ZapA; Region: ZapA; pfam05164 431947004133 phosphodiesterase; Provisional; Region: PRK12704 431947004134 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 431947004135 Zn2+ binding site [ion binding]; other site 431947004136 Mg2+ binding site [ion binding]; other site 431947004137 PSP1 C-terminal conserved region; Region: PSP1; cl00770 431947004138 GldH lipoprotein; Region: GldH_lipo; cl11905 431947004139 recombination protein F; Reviewed; Region: recF; PRK00064 431947004140 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 431947004141 Walker A/P-loop; other site 431947004142 ATP binding site [chemical binding]; other site 431947004143 Q-loop/lid; other site 431947004144 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 431947004145 ABC transporter signature motif; other site 431947004146 Walker B; other site 431947004147 D-loop; other site 431947004148 H-loop/switch region; other site 431947004149 Protein of unknown function (DUF721); Region: DUF721; pfam05258 431947004150 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 431947004151 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 431947004152 ligand binding site [chemical binding]; other site 431947004153 flexible hinge region; other site 431947004154 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 431947004155 putative switch regulator; other site 431947004156 non-specific DNA interactions [nucleotide binding]; other site 431947004157 DNA binding site [nucleotide binding] 431947004158 sequence specific DNA binding site [nucleotide binding]; other site 431947004159 putative cAMP binding site [chemical binding]; other site 431947004160 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 431947004161 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 431947004162 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 431947004163 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 431947004164 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 431947004165 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 431947004166 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 431947004167 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 431947004168 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 431947004169 DNA binding site [nucleotide binding] 431947004170 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 431947004171 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; pfam04563 431947004172 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 431947004173 DNA-directed RNA polymerase, beta subunit; Region: rpoB; TIGR02013 431947004174 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 431947004175 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 431947004176 RPB12 interaction site [polypeptide binding]; other site 431947004177 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 431947004178 RPB11 interaction site [polypeptide binding]; other site 431947004179 RPB12 interaction site [polypeptide binding]; other site 431947004180 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 431947004181 RPB3 interaction site [polypeptide binding]; other site 431947004182 RPB1 interaction site [polypeptide binding]; other site 431947004183 RPB11 interaction site [polypeptide binding]; other site 431947004184 RPB10 interaction site [polypeptide binding]; other site 431947004185 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 431947004186 core dimer interface [polypeptide binding]; other site 431947004187 peripheral dimer interface [polypeptide binding]; other site 431947004188 L10 interface [polypeptide binding]; other site 431947004189 L11 interface [polypeptide binding]; other site 431947004190 putative EF-Tu interaction site [polypeptide binding]; other site 431947004191 putative EF-G interaction site [polypeptide binding]; other site 431947004192 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 431947004193 23S rRNA interface [nucleotide binding]; other site 431947004194 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 431947004195 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 431947004196 mRNA/rRNA interface [nucleotide binding]; other site 431947004197 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 431947004198 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 431947004199 23S rRNA interface [nucleotide binding]; other site 431947004200 L7/L12 interface [polypeptide binding]; other site 431947004201 putative thiostrepton binding site; other site 431947004202 L25 interface [polypeptide binding]; other site 431947004203 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 431947004204 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 431947004205 putative homodimer interface [polypeptide binding]; other site 431947004206 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 431947004207 heterodimer interface [polypeptide binding]; other site 431947004208 homodimer interface [polypeptide binding]; other site 431947004209 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 431947004210 elongation factor Tu; Reviewed; Region: PRK12735 431947004211 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 431947004212 G1 box; other site 431947004213 GEF interaction site [polypeptide binding]; other site 431947004214 GTP/Mg2+ binding site [chemical binding]; other site 431947004215 Switch I region; other site 431947004216 G2 box; other site 431947004217 G3 box; other site 431947004218 Switch II region; other site 431947004219 G4 box; other site 431947004220 G5 box; other site 431947004221 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 431947004222 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 431947004223 Antibiotic Binding Site [chemical binding]; other site 431947004224 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 431947004225 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 431947004226 active site 431947004227 Int/Topo IB signature motif; other site 431947004228 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 431947004229 30S subunit binding site; other site 431947004230 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 431947004231 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 431947004232 MutS domain III; Region: MutS_III; pfam05192 431947004233 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 431947004234 Walker A/P-loop; other site 431947004235 ATP binding site [chemical binding]; other site 431947004236 Q-loop/lid; other site 431947004237 ABC transporter signature motif; other site 431947004238 Walker B; other site 431947004239 D-loop; other site 431947004240 H-loop/switch region; other site 431947004241 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 431947004242 Smr domain; Region: Smr; pfam01713 431947004243 RIP metalloprotease RseP; Region: TIGR00054 431947004244 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 431947004245 active site 431947004246 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 431947004247 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 431947004248 protein binding site [polypeptide binding]; other site 431947004249 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 431947004250 putative substrate binding region [chemical binding]; other site 431947004251 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 431947004252 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 431947004253 excinuclease ABC subunit B; Provisional; Region: PRK05298 431947004254 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 431947004255 ATP binding site [chemical binding]; other site 431947004256 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 431947004257 nucleotide binding region [chemical binding]; other site 431947004258 ATP-binding site [chemical binding]; other site 431947004259 Ultra-violet resistance protein B; Region: UvrB; pfam12344 431947004260 elongation factor Ts; Provisional; Region: tsf; PRK09377 431947004261 UBA/TS-N domain; Region: UBA; pfam00627 431947004262 Elongation factor TS; Region: EF_TS; pfam00889 431947004263 Elongation factor TS; Region: EF_TS; pfam00889 431947004264 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 431947004265 rRNA interaction site [nucleotide binding]; other site 431947004266 S8 interaction site; other site 431947004267 putative laminin-1 binding site; other site 431947004268 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 431947004269 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 431947004270 23S rRNA interface [nucleotide binding]; other site 431947004271 L3 interface [polypeptide binding]; other site 431947004272 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 431947004273 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 431947004274 active site 431947004275 (T/H)XGH motif; other site 431947004276 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 431947004277 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 431947004278 ATP binding site [chemical binding]; other site 431947004279 Mg2+ binding site [ion binding]; other site 431947004280 G-X-G motif; other site 431947004281 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 431947004282 anchoring element; other site 431947004283 dimer interface [polypeptide binding]; other site 431947004284 ATP binding site [chemical binding]; other site 431947004285 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 431947004286 active site 431947004287 putative metal-binding site [ion binding]; other site 431947004288 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 431947004289 DEDDy 3'-5' exonuclease domain of WRN and similar proteins; Region: WRN_exo; cd06141 431947004290 catalytic site [active] 431947004291 putative active site [active] 431947004292 putative substrate binding site [chemical binding]; other site 431947004293 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 431947004294 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 431947004295 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 431947004296 putative RNA binding site [nucleotide binding]; other site 431947004297 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 431947004298 S-adenosylmethionine binding site [chemical binding]; other site 431947004299 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 431947004300 substrate binding pocket [chemical binding]; other site 431947004301 membrane-bound complex binding site; other site 431947004302 hinge residues; other site 431947004303 Domain of unknown function (DUF4289); Region: DUF4289; pfam14121 431947004304 Repair protein; Region: Repair_PSII; pfam04536 431947004305 Ribosomal protein S27; Region: Ribosomal_S27e; cl00897 431947004306 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 431947004307 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 431947004308 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 431947004309 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 431947004310 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 431947004311 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 431947004312 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 431947004313 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 431947004314 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 431947004315 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 431947004316 catalytic site [active] 431947004317 BNR repeat-like domain; Region: BNR_2; pfam13088 431947004318 Asp-box motif; other site 431947004319 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 431947004320 Leucine-rich repeats; other site 431947004321 Substrate binding site [chemical binding]; other site 431947004322 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 431947004323 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 431947004324 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 431947004325 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 431947004326 active site 431947004327 motif I; other site 431947004328 motif II; other site 431947004329 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 431947004330 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 431947004331 generic binding surface II; other site 431947004332 ssDNA binding site; other site 431947004333 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 431947004334 ATP binding site [chemical binding]; other site 431947004335 putative Mg++ binding site [ion binding]; other site 431947004336 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 431947004337 nucleotide binding region [chemical binding]; other site 431947004338 ATP-binding site [chemical binding]; other site 431947004339 UDP-glucose 4-epimerase; Region: PLN02240 431947004340 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 431947004341 NAD binding site [chemical binding]; other site 431947004342 homodimer interface [polypeptide binding]; other site 431947004343 active site 431947004344 substrate binding site [chemical binding]; other site 431947004345 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 431947004346 G1 box; other site 431947004347 GTP/Mg2+ binding site [chemical binding]; other site 431947004348 Switch I region; other site 431947004349 G2 box; other site 431947004350 G3 box; other site 431947004351 Switch II region; other site 431947004352 G4 box; other site 431947004353 G5 box; other site 431947004354 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 431947004355 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 431947004356 active site 431947004357 metal binding site [ion binding]; metal-binding site 431947004358 methionine gamma-lyase; Provisional; Region: PRK06234 431947004359 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 431947004360 homodimer interface [polypeptide binding]; other site 431947004361 substrate-cofactor binding pocket; other site 431947004362 pyridoxal 5'-phosphate binding site [chemical binding]; other site 431947004363 catalytic residue [active] 431947004364 Transposase domain (DUF772); Region: DUF772; pfam05598 431947004365 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 431947004366 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 431947004367 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 431947004368 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 431947004369 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 431947004370 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 431947004371 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 431947004372 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 431947004373 Ligand binding site; other site 431947004374 Putative Catalytic site; other site 431947004375 DXD motif; other site 431947004376 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 431947004377 EamA-like transporter family; Region: EamA; pfam00892 431947004378 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 431947004379 transcription termination factor Rho; Provisional; Region: PRK12608 431947004380 RNA binding site [nucleotide binding]; other site 431947004381 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 431947004382 multimer interface [polypeptide binding]; other site 431947004383 Walker A motif; other site 431947004384 ATP binding site [chemical binding]; other site 431947004385 Walker B motif; other site 431947004386 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 431947004387 Glutamate formiminotransferase [Amino acid transport and metabolism]; Region: COG3643 431947004388 Formiminotransferase domain, N-terminal subdomain; Region: FTCD_N; pfam07837 431947004389 Formiminotransferase domain; Region: FTCD; pfam02971 431947004390 imidazolonepropionase; Validated; Region: PRK09356 431947004391 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 431947004392 active site 431947004393 Nucleoside recognition; Region: Gate; pfam07670 431947004394 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 431947004395 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 431947004396 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 431947004397 active sites [active] 431947004398 tetramer interface [polypeptide binding]; other site 431947004399 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 431947004400 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 431947004401 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 431947004402 membrane ATPase/protein kinase; Provisional; Region: PRK09435 431947004403 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 431947004404 Walker A; other site 431947004405 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 431947004406 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 431947004407 Transposase domain (DUF772); Region: DUF772; pfam05598 431947004408 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 431947004409 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 431947004410 Peptidase family M49; Region: Peptidase_M49; pfam03571 431947004411 A new structural DNA glycosylase; Region: AlkD_like; cl11434 431947004412 active site 431947004413 seryl-tRNA synthetase; Provisional; Region: PRK05431 431947004414 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 431947004415 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 431947004416 dimer interface [polypeptide binding]; other site 431947004417 active site 431947004418 motif 1; other site 431947004419 motif 2; other site 431947004420 motif 3; other site 431947004421 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 431947004422 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 431947004423 Protein of unknown function (DUF4199); Region: DUF4199; pfam13858 431947004424 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 431947004425 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 431947004426 Ligand binding site; other site 431947004427 Putative Catalytic site; other site 431947004428 DXD motif; other site 431947004429 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 431947004430 putative FMN binding site [chemical binding]; other site 431947004431 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 431947004432 ApbE family; Region: ApbE; pfam02424 431947004433 electron transport complex, RnfABCDGE type, A subunit; Region: rnfA; TIGR01943 431947004434 electron transport complex RsxE subunit; Provisional; Region: PRK12405 431947004435 electron transport complex, RnfABCDGE type, G subunit; Region: rnfG; TIGR01947 431947004436 electron transport complex, RnfABCDGE type, D subunit; Region: rnfD; TIGR01946 431947004437 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 431947004438 SLBB domain; Region: SLBB; pfam10531 431947004439 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 431947004440 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 431947004441 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 431947004442 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 431947004443 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 431947004444 TPR repeat; Region: TPR_11; pfam13414 431947004445 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 431947004446 binding surface 431947004447 TPR motif; other site 431947004448 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 431947004449 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 431947004450 binding surface 431947004451 TPR motif; other site 431947004452 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 431947004453 TPR motif; other site 431947004454 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 431947004455 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 431947004456 dimerization interface [polypeptide binding]; other site 431947004457 ATP binding site [chemical binding]; other site 431947004458 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 431947004459 dimerization interface [polypeptide binding]; other site 431947004460 ATP binding site [chemical binding]; other site 431947004461 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 431947004462 putative active site [active] 431947004463 catalytic triad [active] 431947004464 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 431947004465 DNA protecting protein DprA; Region: dprA; TIGR00732 431947004466 Glycosyltransferase like family 2; Region: Glyco_tranf_2_2; pfam10111 431947004467 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 431947004468 active site 431947004469 N-terminal domain of galactosyltransferase; Region: Glyco_transf_7C; cl17476 431947004470 Transposase domain (DUF772); Region: DUF772; pfam05598 431947004471 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 431947004472 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 431947004473 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 431947004474 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 431947004475 Chromate transporter; Region: Chromate_transp; pfam02417 431947004476 Chromate transporter; Region: Chromate_transp; pfam02417 431947004477 gliding motility associated protien GldN; Region: GldN; TIGR03523 431947004478 gliding motility-associated protein GldM; Region: GldM_gliding; TIGR03517 431947004479 GldM N-terminal domain; Region: GldM_N; pfam12081 431947004480 GldM C-terminal domain; Region: GldM_C; pfam12080 431947004481 gliding motility-associated protein GldL; Region: GldL_gliding; TIGR03513 431947004482 gliding motility-associated lipoprotein GldK; Region: GldK; TIGR03525 431947004483 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 431947004484 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 431947004485 Bacteroidetes-specific putative membrane protein; Region: Bac_Flav_fam_1; TIGR03519 431947004486 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 431947004487 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 431947004488 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 431947004489 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 431947004490 HlyD family secretion protein; Region: HlyD_3; pfam13437 431947004491 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 431947004492 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 431947004493 Walker A/P-loop; other site 431947004494 ATP binding site [chemical binding]; other site 431947004495 Q-loop/lid; other site 431947004496 ABC transporter signature motif; other site 431947004497 Walker B; other site 431947004498 D-loop; other site 431947004499 H-loop/switch region; other site 431947004500 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 431947004501 FtsX-like permease family; Region: FtsX; pfam02687 431947004502 FtsX-like permease family; Region: FtsX; pfam02687 431947004503 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 431947004504 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 431947004505 Malic enzyme, N-terminal domain; Region: malic; pfam00390 431947004506 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 431947004507 putative NAD(P) binding site [chemical binding]; other site 431947004508 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 431947004509 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 431947004510 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 431947004511 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 431947004512 TPP-binding site [chemical binding]; other site 431947004513 dimer interface [polypeptide binding]; other site 431947004514 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 431947004515 PYR/PP interface [polypeptide binding]; other site 431947004516 dimer interface [polypeptide binding]; other site 431947004517 TPP binding site [chemical binding]; other site 431947004518 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 431947004519 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 431947004520 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 431947004521 sugar binding site [chemical binding]; other site 431947004522 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 431947004523 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 431947004524 cysteine desulfurase family protein; Region: am_tr_V_EF2568; TIGR01977 431947004525 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 431947004526 catalytic residue [active] 431947004527 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 431947004528 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 431947004529 selenophosphate synthetase; Provisional; Region: PRK00943 431947004530 dimerization interface [polypeptide binding]; other site 431947004531 putative ATP binding site [chemical binding]; other site 431947004532 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 431947004533 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 431947004534 Fructose-1.6-bisphosphate aldolase found in gram +/- bacteria; Region: FBP_aldolase_I_bact; cd00949 431947004535 putative active site [active] 431947004536 catalytic residue [active] 431947004537 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 431947004538 16S/18S rRNA binding site [nucleotide binding]; other site 431947004539 S13e-L30e interaction site [polypeptide binding]; other site 431947004540 25S rRNA binding site [nucleotide binding]; other site 431947004541 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 431947004542 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 431947004543 putative metal binding residues [ion binding]; other site 431947004544 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 431947004545 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 431947004546 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 431947004547 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 431947004548 Coenzyme A binding pocket [chemical binding]; other site 431947004549 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 431947004550 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 431947004551 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 431947004552 Protein export membrane protein; Region: SecD_SecF; pfam02355 431947004553 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 431947004554 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 431947004555 dimerization interface [polypeptide binding]; other site 431947004556 active site 431947004557 metal binding site [ion binding]; metal-binding site 431947004558 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 431947004559 dsRNA binding site [nucleotide binding]; other site 431947004560 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 431947004561 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 431947004562 dimer interface [polypeptide binding]; other site 431947004563 active site 431947004564 acyl carrier protein; Provisional; Region: acpP; PRK00982 431947004565 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 431947004566 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 431947004567 active site 431947004568 substrate binding site [chemical binding]; other site 431947004569 cosubstrate binding site; other site 431947004570 catalytic site [active] 431947004571 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 431947004572 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 431947004573 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 431947004574 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 431947004575 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 431947004576 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 431947004577 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 431947004578 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 431947004579 dimer interface [polypeptide binding]; other site 431947004580 motif 1; other site 431947004581 active site 431947004582 motif 2; other site 431947004583 motif 3; other site 431947004584 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 431947004585 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 431947004586 minor groove reading motif; other site 431947004587 helix-hairpin-helix signature motif; other site 431947004588 substrate binding pocket [chemical binding]; other site 431947004589 active site 431947004590 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 431947004591 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 431947004592 active site 431947004593 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 431947004594 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 431947004595 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 431947004596 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 431947004597 ATP binding site [chemical binding]; other site 431947004598 putative Mg++ binding site [ion binding]; other site 431947004599 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 431947004600 nucleotide binding region [chemical binding]; other site 431947004601 ATP-binding site [chemical binding]; other site 431947004602 TRCF domain; Region: TRCF; pfam03461 431947004603 GrpE; Region: GrpE; pfam01025 431947004604 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 431947004605 dimer interface [polypeptide binding]; other site 431947004606 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 431947004607 chaperone protein DnaJ; Provisional; Region: PRK14289 431947004608 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 431947004609 HSP70 interaction site [polypeptide binding]; other site 431947004610 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 431947004611 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 431947004612 dimer interface [polypeptide binding]; other site 431947004613 Domain of unknown function DUF59; Region: DUF59; cl00941 431947004614 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 431947004615 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 431947004616 putative active site [active] 431947004617 putative metal binding site [ion binding]; other site 431947004618 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 431947004619 putative ADP-ribose binding site [chemical binding]; other site 431947004620 putative active site [active] 431947004621 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 431947004622 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 431947004623 substrate-cofactor binding pocket; other site 431947004624 pyridoxal 5'-phosphate binding site [chemical binding]; other site 431947004625 catalytic residue [active] 431947004626 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 431947004627 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 431947004628 ATP-binding site [chemical binding]; other site 431947004629 Sugar specificity; other site 431947004630 Pyrimidine base specificity; other site 431947004631 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 431947004632 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 431947004633 active site 431947004634 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 431947004635 putative active site [active] 431947004636 putative catalytic site [active] 431947004637 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 431947004638 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 431947004639 Transposase domain (DUF772); Region: DUF772; pfam05598 431947004640 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 431947004641 DDE superfamily endonuclease; Region: DDE_4; cl17710 431947004642 Propeptide_C25; Region: Propeptide_C25; pfam08126 431947004643 gingipain subgroup of the Peptidase C25 family N-terminal domain; Region: Peptidase_C25_N_gingipain; cd10913 431947004644 active site 431947004645 Peptidase family C25, C terminal ig-like domain; Region: Peptidase_C25_C; pfam03785 431947004646 Domain of unknown function (DUF2436); Region: DUF2436; pfam10365 431947004647 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 431947004648 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 431947004649 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 431947004650 Predicted acetyltransferase involved in intracellular survival and related acetyltransferases [General function prediction only]; Region: Eis; COG4552 431947004651 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 431947004652 Coenzyme A binding pocket [chemical binding]; other site 431947004653 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 431947004654 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 431947004655 Domain of unknown function (DUF2436); Region: DUF2436; pfam10365 431947004656 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 431947004657 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 431947004658 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 431947004659 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 431947004660 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 431947004661 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 431947004662 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 431947004663 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 431947004664 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 431947004665 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 431947004666 nucleoside transporter; Region: 2A0110; TIGR00889 431947004667 Domain of unknown function (DUF4270); Region: DUF4270; pfam14092 431947004668 Starch synthase catalytic domain; Region: Glyco_transf_5; pfam08323 431947004669 DEAD-like helicases superfamily; Region: DEXDc; smart00487 431947004670 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 431947004671 ATP binding site [chemical binding]; other site 431947004672 putative Mg++ binding site [ion binding]; other site 431947004673 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 431947004674 nucleotide binding region [chemical binding]; other site 431947004675 ATP-binding site [chemical binding]; other site 431947004676 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 431947004677 AMP-binding enzyme; Region: AMP-binding; pfam00501 431947004678 acyl-activating enzyme (AAE) consensus motif; other site 431947004679 putative AMP binding site [chemical binding]; other site 431947004680 putative active site [active] 431947004681 putative CoA binding site [chemical binding]; other site 431947004682 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 431947004683 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 431947004684 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 431947004685 DNA binding residues [nucleotide binding] 431947004686 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 431947004687 enolase; Provisional; Region: eno; PRK00077 431947004688 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 431947004689 dimer interface [polypeptide binding]; other site 431947004690 metal binding site [ion binding]; metal-binding site 431947004691 substrate binding pocket [chemical binding]; other site 431947004692 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 431947004693 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 431947004694 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 431947004695 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 431947004696 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 431947004697 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 431947004698 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 431947004699 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 431947004700 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 431947004701 Ligand binding site; other site 431947004702 oligomer interface; other site 431947004703 DNA primase, catalytic core; Region: dnaG; TIGR01391 431947004704 CHC2 zinc finger; Region: zf-CHC2; pfam01807 431947004705 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 431947004706 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 431947004707 active site 431947004708 metal binding site [ion binding]; metal-binding site 431947004709 interdomain interaction site; other site 431947004710 Ferredoxin [Energy production and conversion]; Region: COG1146 431947004711 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 431947004712 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 431947004713 dimer interface [polypeptide binding]; other site 431947004714 PYR/PP interface [polypeptide binding]; other site 431947004715 TPP binding site [chemical binding]; other site 431947004716 substrate binding site [chemical binding]; other site 431947004717 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 431947004718 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 431947004719 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 431947004720 TPP-binding site [chemical binding]; other site 431947004721 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 431947004722 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 431947004723 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 431947004724 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 431947004725 Zn2+ binding site [ion binding]; other site 431947004726 Mg2+ binding site [ion binding]; other site 431947004727 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 431947004728 synthetase active site [active] 431947004729 NTP binding site [chemical binding]; other site 431947004730 metal binding site [ion binding]; metal-binding site 431947004731 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 431947004732 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 431947004733 V-type ATP synthase subunit K; Validated; Region: PRK06558 431947004734 ATP synthase subunit C; Region: ATP-synt_C; pfam00137 431947004735 ATP synthase subunit C; Region: ATP-synt_C; pfam00137 431947004736 V-type ATP synthase subunit I; Validated; Region: PRK05771 431947004737 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 431947004738 V-type ATP synthase subunit D; Provisional; Region: PRK02195 431947004739 V-type ATP synthase subunit B; Provisional; Region: PRK02118 431947004740 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 431947004741 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 431947004742 Walker A motif homologous position; other site 431947004743 Walker B motif; other site 431947004744 V-type ATP synthase subunit A; Provisional; Region: PRK04192 431947004745 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 431947004746 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 431947004747 Walker A motif/ATP binding site; other site 431947004748 Walker B motif; other site 431947004749 Protein of unknown function (DUF2764); Region: DUF2764; pfam10962 431947004750 V-type ATP synthase subunit E; Provisional; Region: PRK01558 431947004751 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 431947004752 Tetratricopeptide repeat; Region: TPR_12; pfam13424 431947004753 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 431947004754 binding surface 431947004755 TPR motif; other site 431947004756 Tetratricopeptide repeat; Region: TPR_12; pfam13424 431947004757 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 431947004758 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 431947004759 dimer interface [polypeptide binding]; other site 431947004760 phosphorylation site [posttranslational modification] 431947004761 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 431947004762 ATP binding site [chemical binding]; other site 431947004763 Mg2+ binding site [ion binding]; other site 431947004764 G-X-G motif; other site 431947004765 Response regulator receiver domain; Region: Response_reg; pfam00072 431947004766 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 431947004767 active site 431947004768 phosphorylation site [posttranslational modification] 431947004769 intermolecular recognition site; other site 431947004770 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 431947004771 dimerization interface [polypeptide binding]; other site 431947004772 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 431947004773 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 431947004774 DNA polymerase I; Provisional; Region: PRK05755 431947004775 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 431947004776 active site 431947004777 metal binding site 1 [ion binding]; metal-binding site 431947004778 putative 5' ssDNA interaction site; other site 431947004779 metal binding site 3; metal-binding site 431947004780 metal binding site 2 [ion binding]; metal-binding site 431947004781 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 431947004782 putative DNA binding site [nucleotide binding]; other site 431947004783 putative metal binding site [ion binding]; other site 431947004784 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 431947004785 active site 431947004786 catalytic site [active] 431947004787 substrate binding site [chemical binding]; other site 431947004788 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 431947004789 active site 431947004790 DNA binding site [nucleotide binding] 431947004791 catalytic site [active] 431947004792 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 431947004793 1,4-alpha-glucan branching enzyme [Carbohydrate transport and metabolism]; Region: GlgB; COG0296 431947004794 Alpha amylase catalytic domain found in bacterial and eukaryotic branching enzymes; Region: AmyAc_bac_euk_BE; cd11321 431947004795 active site 431947004796 catalytic site [active] 431947004797 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 431947004798 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 431947004799 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 431947004800 Domain of unknown function (DUF3943); Region: DUF3943; pfam13084 431947004801 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 431947004802 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 431947004803 active site 431947004804 Zn binding site [ion binding]; other site 431947004805 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 431947004806 active site 431947004807 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 431947004808 homotrimer interaction site [polypeptide binding]; other site 431947004809 putative active site [active] 431947004810 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 431947004811 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 431947004812 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 431947004813 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 431947004814 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 431947004815 Walker A/P-loop; other site 431947004816 ATP binding site [chemical binding]; other site 431947004817 Q-loop/lid; other site 431947004818 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 431947004819 ABC transporter signature motif; other site 431947004820 Walker B; other site 431947004821 D-loop; other site 431947004822 H-loop/switch region; other site 431947004823 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 431947004824 Flavoprotein; Region: Flavoprotein; pfam02441 431947004825 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 431947004826 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 431947004827 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 431947004828 active site 431947004829 catalytic site [active] 431947004830 substrate binding site [chemical binding]; other site 431947004831 DNA polymerase III subunit beta; Validated; Region: PRK05643 431947004832 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 431947004833 putative DNA binding surface [nucleotide binding]; other site 431947004834 dimer interface [polypeptide binding]; other site 431947004835 beta-clamp/clamp loader binding surface; other site 431947004836 beta-clamp/translesion DNA polymerase binding surface; other site 431947004837 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 431947004838 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 431947004839 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 431947004840 C-terminal peptidase (prc); Region: prc; TIGR00225 431947004841 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 431947004842 protein binding site [polypeptide binding]; other site 431947004843 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 431947004844 Catalytic dyad [active] 431947004845 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 431947004846 catalytic motif [active] 431947004847 Zn binding site [ion binding]; other site 431947004848 Protein of unknown function (DUF2023); Region: DUF2023; pfam09633 431947004849 flavodoxin FldA; Validated; Region: PRK09267 431947004850 glycerate kinase; Region: TIGR00045 431947004851 AAA domain; Region: AAA_14; pfam13173 431947004852 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 431947004853 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 431947004854 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 431947004855 Leucine-rich repeats; other site 431947004856 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 431947004857 Substrate binding site [chemical binding]; other site 431947004858 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 431947004859 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 431947004860 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 431947004861 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 431947004862 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 431947004863 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 431947004864 G1 box; other site 431947004865 GTP/Mg2+ binding site [chemical binding]; other site 431947004866 G2 box; other site 431947004867 Switch I region; other site 431947004868 G3 box; other site 431947004869 Switch II region; other site 431947004870 G4 box; other site 431947004871 TIR domain; Region: TIR_2; pfam13676 431947004872 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1755 431947004873 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 431947004874 S-adenosylmethionine binding site [chemical binding]; other site 431947004875 urocanate hydratase; Provisional; Region: PRK05414 431947004876 hypothetical protein; Reviewed; Region: PRK12497 431947004877 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 431947004878 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 431947004879 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 431947004880 putative acyl-acceptor binding pocket; other site 431947004881 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 431947004882 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 431947004883 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 431947004884 active site 431947004885 HIGH motif; other site 431947004886 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 431947004887 KMSKS motif; other site 431947004888 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 431947004889 tRNA binding surface [nucleotide binding]; other site 431947004890 anticodon binding site; other site 431947004891 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 431947004892 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 431947004893 active site 431947004894 nucleophile elbow; other site 431947004895 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 431947004896 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 431947004897 active site 431947004898 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 431947004899 Alpha-L-fucosidase; Region: Alpha_L_fucos; smart00812 431947004900 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 431947004901 polyphosphate kinase; Provisional; Region: PRK05443 431947004902 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 431947004903 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 431947004904 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 431947004905 domain interface [polypeptide binding]; other site 431947004906 active site 431947004907 catalytic site [active] 431947004908 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 431947004909 domain interface [polypeptide binding]; other site 431947004910 active site 431947004911 catalytic site [active] 431947004912 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 431947004913 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 431947004914 HflX GTPase family; Region: HflX; cd01878 431947004915 G1 box; other site 431947004916 GTP/Mg2+ binding site [chemical binding]; other site 431947004917 Switch I region; other site 431947004918 G2 box; other site 431947004919 G3 box; other site 431947004920 Switch II region; other site 431947004921 G4 box; other site 431947004922 G5 box; other site 431947004923 tRNA 2-selenouridine synthase; Region: tRNA_sel_U_synt; TIGR03167 431947004924 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 431947004925 active site residue [active] 431947004926 SirA-like protein; Region: SirA; pfam01206 431947004927 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 431947004928 DsrE/DsrF-like family; Region: DrsE; pfam02635 431947004929 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 431947004930 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 431947004931 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 431947004932 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 431947004933 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 431947004934 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 431947004935 TPR motif; other site 431947004936 binding surface 431947004937 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 431947004938 S-adenosylmethionine synthetase; Validated; Region: PRK05250 431947004939 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 431947004940 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 431947004941 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 431947004942 Thiamine pyrophosphokinase; Region: TPK; cd07995 431947004943 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 431947004944 active site 431947004945 dimerization interface [polypeptide binding]; other site 431947004946 thiamine binding site [chemical binding]; other site 431947004947 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 431947004948 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 431947004949 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 431947004950 GTPase RsgA; Reviewed; Region: PRK00098 431947004951 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 431947004952 RNA binding site [nucleotide binding]; other site 431947004953 homodimer interface [polypeptide binding]; other site 431947004954 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 431947004955 GTPase/Zn-binding domain interface [polypeptide binding]; other site 431947004956 GTP/Mg2+ binding site [chemical binding]; other site 431947004957 G4 box; other site 431947004958 G5 box; other site 431947004959 G1 box; other site 431947004960 Switch I region; other site 431947004961 G2 box; other site 431947004962 G3 box; other site 431947004963 Switch II region; other site 431947004964 ribosome recycling factor; Reviewed; Region: frr; PRK00083 431947004965 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 431947004966 hinge region; other site 431947004967 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 431947004968 putative nucleotide binding site [chemical binding]; other site 431947004969 uridine monophosphate binding site [chemical binding]; other site 431947004970 homohexameric interface [polypeptide binding]; other site 431947004971 Protein of unknown function (DUF1661); Region: DUF1661; pfam07877 431947004972 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 431947004973 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 431947004974 GLPGLI family protein; Region: GLPGLI; TIGR01200 431947004975 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 431947004976 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 431947004977 Transposase domain (DUF772); Region: DUF772; pfam05598 431947004978 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 431947004979 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 431947004980 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 431947004981 alphaNTD - beta interaction site [polypeptide binding]; other site 431947004982 alphaNTD homodimer interface [polypeptide binding]; other site 431947004983 alphaNTD - beta' interaction site [polypeptide binding]; other site 431947004984 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 431947004985 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 431947004986 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 431947004987 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 431947004988 RNA binding surface [nucleotide binding]; other site 431947004989 30S ribosomal protein S11; Validated; Region: PRK05309 431947004990 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 431947004991 30S ribosomal protein S13; Region: bact_S13; TIGR03631 431947004992 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 431947004993 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 431947004994 rRNA binding site [nucleotide binding]; other site 431947004995 predicted 30S ribosome binding site; other site 431947004996 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 431947004997 active site 431947004998 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 431947004999 SecY translocase; Region: SecY; pfam00344 431947005000 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 431947005001 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 431947005002 23S rRNA binding site [nucleotide binding]; other site 431947005003 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 431947005004 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 431947005005 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 431947005006 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 431947005007 5S rRNA interface [nucleotide binding]; other site 431947005008 L27 interface [polypeptide binding]; other site 431947005009 23S rRNA interface [nucleotide binding]; other site 431947005010 L5 interface [polypeptide binding]; other site 431947005011 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 431947005012 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 431947005013 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 431947005014 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 431947005015 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 431947005016 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 431947005017 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 431947005018 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 431947005019 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 431947005020 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 431947005021 RNA binding site [nucleotide binding]; other site 431947005022 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 431947005023 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 431947005024 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 431947005025 23S rRNA interface [nucleotide binding]; other site 431947005026 putative translocon interaction site; other site 431947005027 signal recognition particle (SRP54) interaction site; other site 431947005028 L23 interface [polypeptide binding]; other site 431947005029 trigger factor interaction site; other site 431947005030 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 431947005031 23S rRNA interface [nucleotide binding]; other site 431947005032 5S rRNA interface [nucleotide binding]; other site 431947005033 putative antibiotic binding site [chemical binding]; other site 431947005034 L25 interface [polypeptide binding]; other site 431947005035 L27 interface [polypeptide binding]; other site 431947005036 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 431947005037 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 431947005038 G-X-X-G motif; other site 431947005039 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 431947005040 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 431947005041 putative translocon binding site; other site 431947005042 protein-rRNA interface [nucleotide binding]; other site 431947005043 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 431947005044 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 431947005045 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 431947005046 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 431947005047 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 431947005048 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 431947005049 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 431947005050 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 431947005051 elongation factor G; Reviewed; Region: PRK12739 431947005052 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 431947005053 G1 box; other site 431947005054 putative GEF interaction site [polypeptide binding]; other site 431947005055 GTP/Mg2+ binding site [chemical binding]; other site 431947005056 Switch I region; other site 431947005057 G2 box; other site 431947005058 G3 box; other site 431947005059 Switch II region; other site 431947005060 G4 box; other site 431947005061 G5 box; other site 431947005062 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 431947005063 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 431947005064 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 431947005065 30S ribosomal protein S7; Validated; Region: PRK05302 431947005066 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 431947005067 S17 interaction site [polypeptide binding]; other site 431947005068 S8 interaction site; other site 431947005069 16S rRNA interaction site [nucleotide binding]; other site 431947005070 streptomycin interaction site [chemical binding]; other site 431947005071 23S rRNA interaction site [nucleotide binding]; other site 431947005072 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 431947005073 Protein of unknown function (DUF3667); Region: DUF3667; pfam12412 431947005074 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 431947005075 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 431947005076 putative active site [active] 431947005077 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 431947005078 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 431947005079 ABC-ATPase subunit interface; other site 431947005080 dimer interface [polypeptide binding]; other site 431947005081 putative PBP binding regions; other site 431947005082 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 431947005083 binding surface 431947005084 Tetratricopeptide repeat; Region: TPR_16; pfam13432 431947005085 TPR motif; other site 431947005086 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 431947005087 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 431947005088 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 431947005089 Malate/lactate dehydrogenases [Energy production and conversion]; Region: Mdh; COG0039 431947005090 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 431947005091 NAD(P) binding site [chemical binding]; other site 431947005092 LDH/MDH dimer interface [polypeptide binding]; other site 431947005093 substrate binding site [chemical binding]; other site 431947005094 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 431947005095 Domain of unknown function DUF20; Region: UPF0118; pfam01594 431947005096 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 431947005097 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 431947005098 active site 431947005099 HIGH motif; other site 431947005100 nucleotide binding site [chemical binding]; other site 431947005101 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 431947005102 KMSKS motif; other site 431947005103 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 431947005104 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 431947005105 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 431947005106 Uncharacterized conserved protein [Function unknown]; Region: COG1284 431947005107 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 431947005108 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 431947005109 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 431947005110 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 431947005111 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 431947005112 NAD(P) binding site [chemical binding]; other site 431947005113 active site 431947005114 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 431947005115 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 431947005116 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 431947005117 Domain of unknown function (DUF4295); Region: DUF4295; pfam14128 431947005118 ribosomal protein L33; Region: rpl33; CHL00104 431947005119 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 431947005120 Phosphate transporter family; Region: PHO4; cl00396 431947005121 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 431947005122 TM-ABC transporter signature motif; other site 431947005123 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 431947005124 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 431947005125 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 431947005126 Bacterial sugar transferase; Region: Bac_transf; pfam02397 431947005127 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 431947005128 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 431947005129 Cl- selectivity filter; other site 431947005130 Cl- binding residues [ion binding]; other site 431947005131 pore gating glutamate residue; other site 431947005132 dimer interface [polypeptide binding]; other site 431947005133 FOG: CBS domain [General function prediction only]; Region: COG0517 431947005134 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc2; cd04613 431947005135 Mechanosensitive ion channel; Region: MS_channel; pfam00924 431947005136 TPR repeat; Region: TPR_11; pfam13414 431947005137 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 431947005138 binding surface 431947005139 TPR motif; other site 431947005140 TPR repeat; Region: TPR_11; pfam13414 431947005141 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 431947005142 binding surface 431947005143 Tetratricopeptide repeat; Region: TPR_16; pfam13432 431947005144 TPR motif; other site 431947005145 Transposase domain (DUF772); Region: DUF772; pfam05598 431947005146 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 431947005147 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 431947005148 DNA adenine methylase (dam); Region: dam; TIGR00571 431947005149 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 431947005150 Protein of unknown function (DUF1661); Region: DUF1661; pfam07877 431947005151 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 431947005152 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 431947005153 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 431947005154 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 431947005155 Transposase [DNA replication, recombination, and repair]; Region: COG5433 431947005156 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 431947005157 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 431947005158 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 431947005159 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 431947005160 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 431947005161 protein binding site [polypeptide binding]; other site 431947005162 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 431947005163 Catalytic dyad [active] 431947005164 Homologues of TraJ from Bacteroides conjugative transposon; Region: CtnDOT_TraJ; pfam07863 431947005165 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 431947005166 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 431947005167 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 431947005168 Walker A/P-loop; other site 431947005169 ATP binding site [chemical binding]; other site 431947005170 Q-loop/lid; other site 431947005171 ABC transporter signature motif; other site 431947005172 Walker B; other site 431947005173 D-loop; other site 431947005174 H-loop/switch region; other site 431947005175 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 431947005176 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 431947005177 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 431947005178 Walker A/P-loop; other site 431947005179 ATP binding site [chemical binding]; other site 431947005180 Q-loop/lid; other site 431947005181 ABC transporter signature motif; other site 431947005182 Walker B; other site 431947005183 D-loop; other site 431947005184 H-loop/switch region; other site 431947005185 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 431947005186 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 431947005187 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 431947005188 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 431947005189 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 431947005190 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 431947005191 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 431947005192 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 431947005193 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cd09634 431947005194 Transposase domain (DUF772); Region: DUF772; pfam05598 431947005195 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 431947005196 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 431947005197 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 431947005198 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 431947005199 putative active site [active] 431947005200 putative NTP binding site [chemical binding]; other site 431947005201 putative nucleic acid binding site [nucleotide binding]; other site 431947005202 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 431947005203 CRISPR/Cas system-associated RAMP superfamily protein Cmr6; Region: Cmr6_III-B; cd09661 431947005204 CRISPR/Cas system-associated RAMP superfamily protein Cmr4; Region: Cmr4_III-B; cd09682 431947005205 CRISPR type III-B/RAMP module-associated protein Cmr3; Region: cas_cmr3; TIGR01888 431947005206 CRISPR-associated protein (Cas_Cmr3); Region: Cas_Cmr3; pfam09700 431947005207 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cl13853 431947005208 CRISPR-associated protein Cas10/Cmr2, subtype III-B; Region: cas_TM1794_Cmr2; TIGR02577 431947005209 Protein of unknown function (DUF1661); Region: DUF1661; pfam07877 431947005210 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 431947005211 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 431947005212 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 431947005213 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 431947005214 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 431947005215 GIY-YIG motif/motif A; other site 431947005216 active site 431947005217 catalytic site [active] 431947005218 putative DNA binding site [nucleotide binding]; other site 431947005219 metal binding site [ion binding]; metal-binding site 431947005220 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 431947005221 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 431947005222 putative active site [active] 431947005223 dimerization interface [polypeptide binding]; other site 431947005224 putative tRNAtyr binding site [nucleotide binding]; other site 431947005225 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 431947005226 homodimer interface [polypeptide binding]; other site 431947005227 metal binding site [ion binding]; metal-binding site 431947005228 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 431947005229 intersubunit interface [polypeptide binding]; other site 431947005230 active site 431947005231 catalytic residue [active] 431947005232 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 431947005233 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 431947005234 substrate binding pocket [chemical binding]; other site 431947005235 chain length determination region; other site 431947005236 substrate-Mg2+ binding site; other site 431947005237 catalytic residues [active] 431947005238 aspartate-rich region 1; other site 431947005239 active site lid residues [active] 431947005240 aspartate-rich region 2; other site 431947005241 WbqC-like protein family; Region: WbqC; pfam08889 431947005242 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 431947005243 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 431947005244 Catalytic site [active] 431947005245 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 431947005246 Signal peptidase I [Intracellular trafficking and secretion]; Region: LepB; COG0681 431947005247 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 431947005248 Catalytic site [active] 431947005249 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 431947005250 dihydrodipicolinate reductase; Provisional; Region: PRK00048 431947005251 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 431947005252 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 431947005253 deoxyguanosinetriphosphate triphosphohydrolase, putative; Region: dGTP_triPase; TIGR01353 431947005254 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 431947005255 Predicted membrane protein [Function unknown]; Region: COG2855 431947005256 Cna protein B-type domain; Region: Cna_B_2; pfam13715 431947005257 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 431947005258 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 431947005259 N-terminal plug; other site 431947005260 ligand-binding site [chemical binding]; other site 431947005261 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 431947005262 Recombination protein O N terminal; Region: RecO_N; pfam11967 431947005263 Recombination protein O C terminal; Region: RecO_C; pfam02565 431947005264 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 431947005265 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 431947005266 active site 431947005267 substrate binding site [chemical binding]; other site 431947005268 metal binding site [ion binding]; metal-binding site 431947005269 Transposase domain (DUF772); Region: DUF772; pfam05598 431947005270 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 431947005271 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 431947005272 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 431947005273 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-B; cd09722 431947005274 Domain of unknown function DUF83; Region: Cas_Cas4; pfam01930 431947005275 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I; cl00803 431947005276 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 431947005277 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 431947005278 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 431947005279 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09652 431947005280 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cl00021 431947005281 Sulfatase; Region: Sulfatase; pfam00884 431947005282 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 431947005283 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 431947005284 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 431947005285 putative active site [active] 431947005286 substrate binding site [chemical binding]; other site 431947005287 putative cosubstrate binding site; other site 431947005288 catalytic site [active] 431947005289 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 431947005290 substrate binding site [chemical binding]; other site 431947005291 Propeptide_C25; Region: Propeptide_C25; pfam08126 431947005292 gingipain subgroup of the Peptidase C25 family N-terminal domain; Region: Peptidase_C25_N_gingipain; cd10913 431947005293 active site 431947005294 Peptidase family C25, C terminal ig-like domain; Region: Peptidase_C25_C; pfam03785 431947005295 Domain of unknown function (DUF2436); Region: DUF2436; pfam10365 431947005296 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 431947005297 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 431947005298 Domain of unknown function (DUF2436); Region: DUF2436; pfam10365 431947005299 Protein of unknown function (DUF1661); Region: DUF1661; pfam07877 431947005300 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 431947005301 catalytic core [active] 431947005302 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 431947005303 putative deacylase active site [active] 431947005304 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 431947005305 active site 431947005306 Domain of unknown function (DUF4294); Region: DUF4294; pfam14127 431947005307 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 431947005308 putative hydrophobic ligand binding site [chemical binding]; other site 431947005309 primosome assembly protein PriA; Validated; Region: PRK05580 431947005310 putative oxidoreductase; Provisional; Region: PRK12831 431947005311 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 431947005312 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 431947005313 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 431947005314 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 431947005315 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 431947005316 FAD binding pocket [chemical binding]; other site 431947005317 FAD binding motif [chemical binding]; other site 431947005318 phosphate binding motif [ion binding]; other site 431947005319 beta-alpha-beta structure motif; other site 431947005320 NAD binding pocket [chemical binding]; other site 431947005321 Iron coordination center [ion binding]; other site 431947005322 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 431947005323 Ion transport protein; Region: Ion_trans; pfam00520 431947005324 Ion channel; Region: Ion_trans_2; pfam07885 431947005325 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 431947005326 amidase catalytic site [active] 431947005327 Zn binding residues [ion binding]; other site 431947005328 substrate binding site [chemical binding]; other site 431947005329 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 431947005330 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 431947005331 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 431947005332 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 431947005333 catalytic residues [active] 431947005334 Uncharacterized conserved protein [Function unknown]; Region: COG0327 431947005335 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 431947005336 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 431947005337 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 431947005338 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 431947005339 Putative zinc ribbon domain; Region: DUF164; pfam02591 431947005340 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 431947005341 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 431947005342 Ligand Binding Site [chemical binding]; other site 431947005343 TilS substrate C-terminal domain; Region: TilS_C; smart00977 431947005344 PIF1-like helicase; Region: PIF1; pfam05970 431947005345 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 431947005346 Walker A motif; other site 431947005347 ATP binding site [chemical binding]; other site 431947005348 Walker B motif; other site 431947005349 Family description; Region: UvrD_C_2; pfam13538 431947005350 Dehydratase family; Region: ILVD_EDD; cl00340 431947005351 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 431947005352 dihydrodipicolinate synthase; Region: dapA; TIGR00674 431947005353 dimer interface [polypeptide binding]; other site 431947005354 active site 431947005355 catalytic residue [active] 431947005356 AAA domain; Region: AAA_26; pfam13500 431947005357 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 431947005358 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 431947005359 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 431947005360 ligand binding site [chemical binding]; other site 431947005361 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK07565 431947005362 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 431947005363 putative active site [active] 431947005364 putative FMN binding site [chemical binding]; other site 431947005365 putative substrate binding site [chemical binding]; other site 431947005366 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 431947005367 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 431947005368 ATP binding site [chemical binding]; other site 431947005369 Mg2+ binding site [ion binding]; other site 431947005370 G-X-G motif; other site 431947005371 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 431947005372 DHH family; Region: DHH; pfam01368 431947005373 DHHA1 domain; Region: DHHA1; pfam02272 431947005374 PspC domain; Region: PspC; pfam04024 431947005375 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 431947005376 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 431947005377 active site 431947005378 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 431947005379 nicotinate (nicotinamide) nucleotide adenylyltransferase; Region: TIGR00482 431947005380 active site 431947005381 (T/H)XGH motif; other site 431947005382 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 431947005383 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1649 431947005384 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 431947005385 PIF1-like helicase; Region: PIF1; pfam05970 431947005386 AAA domain; Region: AAA_30; pfam13604 431947005387 Family description; Region: UvrD_C_2; pfam13538 431947005388 TPR repeat; Region: TPR_11; pfam13414 431947005389 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 431947005390 TPR motif; other site 431947005391 binding surface 431947005392 Tetratricopeptide repeat; Region: TPR_16; pfam13432 431947005393 Outer membrane efflux protein; Region: OEP; pfam02321 431947005394 Outer membrane efflux protein; Region: OEP; pfam02321 431947005395 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 431947005396 Protein export membrane protein; Region: SecD_SecF; cl14618 431947005397 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 431947005398 HlyD family secretion protein; Region: HlyD_3; pfam13437 431947005399 putative carbohydrate kinase; Provisional; Region: PRK10565 431947005400 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 431947005401 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 431947005402 putative substrate binding site [chemical binding]; other site 431947005403 putative ATP binding site [chemical binding]; other site 431947005404 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 431947005405 acyl-[acyl-carrier-protein]--UDP-N- acetylglucosamine O-acyltransferase; Region: lipid_A_lpxA; TIGR01852 431947005406 active site 431947005407 bifunctional UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase/(3R)-hydroxymyristoyl-[acyl-carrier-protein] dehydratase; Reviewed; Region: PRK13188 431947005408 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 431947005409 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 431947005410 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 431947005411 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 431947005412 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 431947005413 trimer interface [polypeptide binding]; other site 431947005414 active site 431947005415 UDP-GlcNAc binding site [chemical binding]; other site 431947005416 lipid binding site [chemical binding]; lipid-binding site 431947005417 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 431947005418 active site 431947005419 dimer interface [polypeptide binding]; other site 431947005420 peptide chain release factor 1; Validated; Region: prfA; PRK00591 431947005421 This domain is found in peptide chain release factors; Region: PCRF; smart00937 431947005422 RF-1 domain; Region: RF-1; pfam00472 431947005423 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 431947005424 dimerization interface [polypeptide binding]; other site 431947005425 ATP binding site [chemical binding]; other site 431947005426 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 431947005427 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 431947005428 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 431947005429 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 431947005430 RloB-like protein; Region: RloB; pfam13707 431947005431 AAA domain; Region: AAA_21; pfam13304 431947005432 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 431947005433 ABC transporter signature motif; other site 431947005434 Walker B; other site 431947005435 D-loop; other site 431947005436 H-loop/switch region; other site 431947005437 Bacterial Ig-like domain; Region: Big_5; pfam13205 431947005438 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 431947005439 Putative glycoside hydrolase xylanase; Region: Xylanase; pfam13201 431947005440 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 431947005441 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 431947005442 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 431947005443 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 431947005444 alpha-galactosidase; Region: PLN02808; cl17638 431947005445 helicase 45; Provisional; Region: PTZ00424 431947005446 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 431947005447 ATP binding site [chemical binding]; other site 431947005448 Mg++ binding site [ion binding]; other site 431947005449 motif III; other site 431947005450 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 431947005451 nucleotide binding region [chemical binding]; other site 431947005452 ATP-binding site [chemical binding]; other site 431947005453 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 431947005454 RNA binding site [nucleotide binding]; other site 431947005455 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 431947005456 putative active site [active] 431947005457 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 431947005458 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 431947005459 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 431947005460 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 431947005461 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 431947005462 dimerization interface [polypeptide binding]; other site 431947005463 DPS ferroxidase diiron center [ion binding]; other site 431947005464 ion pore; other site 431947005465 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 431947005466 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 431947005467 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 431947005468 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 431947005469 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 431947005470 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 431947005471 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 431947005472 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 431947005473 HlyD family secretion protein; Region: HlyD_3; pfam13437 431947005474 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 431947005475 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 431947005476 MutS domain I; Region: MutS_I; pfam01624 431947005477 MutS domain II; Region: MutS_II; pfam05188 431947005478 MutS domain III; Region: MutS_III; pfam05192 431947005479 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 431947005480 Walker A/P-loop; other site 431947005481 ATP binding site [chemical binding]; other site 431947005482 Q-loop/lid; other site 431947005483 ABC transporter signature motif; other site 431947005484 Walker B; other site 431947005485 D-loop; other site 431947005486 H-loop/switch region; other site 431947005487 hypothetical protein; Provisional; Region: PRK12378 431947005488 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 431947005489 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 431947005490 putative tRNA-binding site [nucleotide binding]; other site 431947005491 B3/4 domain; Region: B3_4; pfam03483 431947005492 tRNA synthetase B5 domain; Region: B5; pfam03484 431947005493 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 431947005494 dimer interface [polypeptide binding]; other site 431947005495 motif 1; other site 431947005496 motif 3; other site 431947005497 motif 2; other site 431947005498 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 431947005499 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 431947005500 Family description; Region: UvrD_C_2; pfam13538 431947005501 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 431947005502 putative acyl-acceptor binding pocket; other site 431947005503 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 431947005504 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 431947005505 classical (c) SDRs; Region: SDR_c; cd05233 431947005506 NAD(P) binding site [chemical binding]; other site 431947005507 active site 431947005508 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 431947005509 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 431947005510 active site 431947005511 nucleotide binding site [chemical binding]; other site 431947005512 HIGH motif; other site 431947005513 KMSKS motif; other site 431947005514 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 431947005515 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 431947005516 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14466 431947005517 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 431947005518 FeS/SAM binding site; other site 431947005519 Protein of unknown function (DUF1661); Region: DUF1661; pfam07877 431947005520 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 431947005521 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 431947005522 dimer interface [polypeptide binding]; other site 431947005523 motif 1; other site 431947005524 active site 431947005525 motif 2; other site 431947005526 motif 3; other site 431947005527 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 431947005528 anticodon binding site; other site 431947005529 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 431947005530 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 431947005531 folate binding site [chemical binding]; other site 431947005532 NADP+ binding site [chemical binding]; other site 431947005533 thymidylate synthase; Reviewed; Region: thyA; PRK01827 431947005534 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 431947005535 dimerization interface [polypeptide binding]; other site 431947005536 active site 431947005537 Peptidase family M48; Region: Peptidase_M48; pfam01435 431947005538 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 431947005539 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 431947005540 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 431947005541 ABC transporter; Region: ABC_tran_2; pfam12848 431947005542 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 431947005543 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 431947005544 TPR motif; other site 431947005545 binding surface 431947005546 TPR repeat; Region: TPR_11; pfam13414 431947005547 TPR repeat; Region: TPR_11; pfam13414 431947005548 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 431947005549 TPR motif; other site 431947005550 binding surface 431947005551 Tetratricopeptide repeat; Region: TPR_9; pfam13371 431947005552 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 431947005553 binding surface 431947005554 TPR motif; other site 431947005555 TPR repeat; Region: TPR_11; pfam13414 431947005556 TPR repeat; Region: TPR_11; pfam13414 431947005557 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 431947005558 binding surface 431947005559 TPR motif; other site 431947005560 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 431947005561 TPR motif; other site 431947005562 Tetratricopeptide repeat; Region: TPR_12; pfam13424 431947005563 binding surface 431947005564 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 431947005565 active site 431947005566 catalytic residues [active] 431947005567 metal binding site [ion binding]; metal-binding site 431947005568 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 431947005569 MG2 domain; Region: A2M_N; pfam01835 431947005570 Alpha-2-macroglobulin family; Region: A2M; pfam00207 431947005571 2-dehydropantoate 2-reductase; Region: apbA_panE; TIGR00745 431947005572 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 431947005573 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 431947005574 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 431947005575 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 431947005576 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 431947005577 ABC transporter; Region: ABC_tran_2; pfam12848 431947005578 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 431947005579 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 431947005580 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 431947005581 NAD(P) binding site [chemical binding]; other site 431947005582 active site 431947005583 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 431947005584 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 431947005585 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 431947005586 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 431947005587 Walker A/P-loop; other site 431947005588 ATP binding site [chemical binding]; other site 431947005589 Q-loop/lid; other site 431947005590 ABC transporter signature motif; other site 431947005591 Walker B; other site 431947005592 D-loop; other site 431947005593 H-loop/switch region; other site 431947005594 Protein of unknown function (DUF1661); Region: DUF1661; pfam07877 431947005595 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 431947005596 Protein of unknown function (DUF2851); Region: DUF2851; pfam11013 431947005597 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 431947005598 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 431947005599 Substrate binding site; other site 431947005600 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 431947005601 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 431947005602 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 431947005603 TPP-binding site; other site 431947005604 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 431947005605 PYR/PP interface [polypeptide binding]; other site 431947005606 dimer interface [polypeptide binding]; other site 431947005607 TPP binding site [chemical binding]; other site 431947005608 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 431947005609 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 431947005610 TrkA-N domain; Region: TrkA_N; pfam02254 431947005611 TrkA-C domain; Region: TrkA_C; pfam02080 431947005612 TrkA-N domain; Region: TrkA_N; pfam02254 431947005613 TrkA-C domain; Region: TrkA_C; pfam02080 431947005614 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 431947005615 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 431947005616 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 431947005617 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 431947005618 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 431947005619 FeS/SAM binding site; other site 431947005620 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 431947005621 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 431947005622 putative acyl-acceptor binding pocket; other site 431947005623 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 431947005624 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 431947005625 Probable Catalytic site; other site 431947005626 metal-binding site 431947005627 Transcriptional regulators [Transcription]; Region: MarR; COG1846 431947005628 Winged helix DNA-binding domain; Region: HTH_34; pfam13601 431947005629 Cna protein B-type domain; Region: Cna_B_2; pfam13715 431947005630 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 431947005631 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629