-- dump date 20140619_045803 -- class Genbank::misc_feature -- table misc_feature_note -- id note 167879000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 167879000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 167879000003 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 167879000004 Walker A motif; other site 167879000005 ATP binding site [chemical binding]; other site 167879000006 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 167879000007 Walker B motif; other site 167879000008 arginine finger; other site 167879000009 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 167879000010 DnaA box-binding interface [nucleotide binding]; other site 167879000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 167879000012 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 167879000013 putative DNA binding surface [nucleotide binding]; other site 167879000014 dimer interface [polypeptide binding]; other site 167879000015 beta-clamp/clamp loader binding surface; other site 167879000016 beta-clamp/translesion DNA polymerase binding surface; other site 167879000017 recombination protein F; Reviewed; Region: recF; PRK00064 167879000018 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 167879000019 Walker A/P-loop; other site 167879000020 ATP binding site [chemical binding]; other site 167879000021 Q-loop/lid; other site 167879000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 167879000023 ABC transporter signature motif; other site 167879000024 Walker B; other site 167879000025 D-loop; other site 167879000026 H-loop/switch region; other site 167879000027 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 167879000028 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 167879000029 ATP binding site [chemical binding]; other site 167879000030 Mg2+ binding site [ion binding]; other site 167879000031 G-X-G motif; other site 167879000032 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 167879000033 anchoring element; other site 167879000034 dimer interface [polypeptide binding]; other site 167879000035 ATP binding site [chemical binding]; other site 167879000036 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 167879000037 active site 167879000038 putative metal-binding site [ion binding]; other site 167879000039 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 167879000040 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 167879000041 dimer interface [polypeptide binding]; other site 167879000042 motif 1; other site 167879000043 active site 167879000044 motif 2; other site 167879000045 motif 3; other site 167879000046 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 167879000047 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 167879000048 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 167879000049 Protein of unknown function (DUF465); Region: DUF465; cl01070 167879000050 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 167879000051 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 167879000052 Catalytic site [active] 167879000053 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 167879000054 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 167879000055 CPxP motif; other site 167879000056 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 167879000057 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 167879000058 N-acetyl-D-glucosamine binding site [chemical binding]; other site 167879000059 catalytic residue [active] 167879000060 proline dipeptidase; Provisional; Region: PRK13607 167879000061 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 167879000062 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 167879000063 active site 167879000064 hypothetical protein; Provisional; Region: PRK11568 167879000065 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 167879000066 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 167879000067 Cation transport protein; Region: TrkH; cl17365 167879000068 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 167879000069 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 167879000070 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 167879000071 TrkA-N domain; Region: TrkA_N; pfam02254 167879000072 TrkA-C domain; Region: TrkA_C; pfam02080 167879000073 TrkA-N domain; Region: TrkA_N; pfam02254 167879000074 TrkA-C domain; Region: TrkA_C; pfam02080 167879000075 16S rRNA methyltransferase B; Provisional; Region: PRK10901 167879000076 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 167879000077 putative RNA binding site [nucleotide binding]; other site 167879000078 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 167879000079 S-adenosylmethionine binding site [chemical binding]; other site 167879000080 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 167879000081 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 167879000082 putative active site [active] 167879000083 substrate binding site [chemical binding]; other site 167879000084 putative cosubstrate binding site; other site 167879000085 catalytic site [active] 167879000086 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 167879000087 substrate binding site [chemical binding]; other site 167879000088 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 167879000089 active site 167879000090 catalytic residues [active] 167879000091 metal binding site [ion binding]; metal-binding site 167879000092 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 167879000093 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 167879000094 hypothetical protein; Provisional; Region: PRK10736 167879000095 DNA protecting protein DprA; Region: dprA; TIGR00732 167879000096 hypothetical protein; Validated; Region: PRK03430 167879000097 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 167879000098 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 167879000099 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 167879000100 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 167879000101 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 167879000102 ATP-grasp domain; Region: ATP-grasp; pfam02222 167879000103 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 167879000104 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 167879000105 OmpW family; Region: OmpW; cl17427 167879000106 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 167879000107 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 167879000108 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 167879000109 shikimate binding site; other site 167879000110 NAD(P) binding site [chemical binding]; other site 167879000111 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 167879000112 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 167879000113 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 167879000114 trimer interface [polypeptide binding]; other site 167879000115 putative metal binding site [ion binding]; other site 167879000116 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 167879000117 Response regulator receiver domain; Region: Response_reg; pfam00072 167879000118 active site 167879000119 phosphorylation site [posttranslational modification] 167879000120 intermolecular recognition site; other site 167879000121 dimerization interface [polypeptide binding]; other site 167879000122 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 167879000123 DEAD-like helicases superfamily; Region: DEXDc; smart00487 167879000124 ATP binding site [chemical binding]; other site 167879000125 Mg++ binding site [ion binding]; other site 167879000126 motif III; other site 167879000127 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 167879000128 nucleotide binding region [chemical binding]; other site 167879000129 ATP-binding site [chemical binding]; other site 167879000130 ATP synthase I chain; Region: ATP_synt_I; cl09170 167879000131 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 167879000132 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 167879000133 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 167879000134 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 167879000135 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 167879000136 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 167879000137 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 167879000138 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 167879000139 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 167879000140 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 167879000141 beta subunit interaction interface [polypeptide binding]; other site 167879000142 Walker A motif; other site 167879000143 ATP binding site [chemical binding]; other site 167879000144 Walker B motif; other site 167879000145 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 167879000146 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 167879000147 core domain interface [polypeptide binding]; other site 167879000148 delta subunit interface [polypeptide binding]; other site 167879000149 epsilon subunit interface [polypeptide binding]; other site 167879000150 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 167879000151 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 167879000152 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 167879000153 alpha subunit interaction interface [polypeptide binding]; other site 167879000154 Walker A motif; other site 167879000155 ATP binding site [chemical binding]; other site 167879000156 Walker B motif; other site 167879000157 inhibitor binding site; inhibition site 167879000158 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 167879000159 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 167879000160 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 167879000161 gamma subunit interface [polypeptide binding]; other site 167879000162 epsilon subunit interface [polypeptide binding]; other site 167879000163 LBP interface [polypeptide binding]; other site 167879000164 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 167879000165 Phosphotransferase enzyme family; Region: APH; pfam01636 167879000166 active site 167879000167 substrate binding site [chemical binding]; other site 167879000168 ATP binding site [chemical binding]; other site 167879000169 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 167879000170 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 167879000171 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 167879000172 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 167879000173 Na binding site [ion binding]; other site 167879000174 PAS domain; Region: PAS; smart00091 167879000175 PAS fold; Region: PAS_7; pfam12860 167879000176 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 167879000177 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 167879000178 ATP binding site [chemical binding]; other site 167879000179 Mg2+ binding site [ion binding]; other site 167879000180 G-X-G motif; other site 167879000181 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 167879000182 active site 167879000183 phosphorylation site [posttranslational modification] 167879000184 intermolecular recognition site; other site 167879000185 dimerization interface [polypeptide binding]; other site 167879000186 Family description; Region: VCBS; pfam13517 167879000187 Family description; Region: VCBS; pfam13517 167879000188 Protein of unknown function (DUF3565); Region: DUF3565; pfam12088 167879000189 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 167879000190 HemY protein N-terminus; Region: HemY_N; pfam07219 167879000191 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 167879000192 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 167879000193 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 167879000194 active site 167879000195 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 167879000196 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 167879000197 domain interfaces; other site 167879000198 active site 167879000199 iron donor protein CyaY; Region: FeS_CyaY; TIGR03421 167879000200 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; pfam13627 167879000201 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 167879000202 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 167879000203 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 167879000204 Protein of unknown function, DUF484; Region: DUF484; cl17449 167879000205 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 167879000206 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 167879000207 motif II; other site 167879000208 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 167879000209 Part of AAA domain; Region: AAA_19; pfam13245 167879000210 Family description; Region: UvrD_C_2; pfam13538 167879000211 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 167879000212 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 167879000213 active site 167879000214 phosphorylation site [posttranslational modification] 167879000215 intermolecular recognition site; other site 167879000216 Response regulator receiver domain; Region: Response_reg; pfam00072 167879000217 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 167879000218 active site 167879000219 phosphorylation site [posttranslational modification] 167879000220 intermolecular recognition site; other site 167879000221 dimerization interface [polypeptide binding]; other site 167879000222 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879000223 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879000224 metal binding site [ion binding]; metal-binding site 167879000225 active site 167879000226 I-site; other site 167879000227 Predicted permeases [General function prediction only]; Region: RarD; COG2962 167879000228 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 167879000229 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 167879000230 ATP binding site [chemical binding]; other site 167879000231 putative Mg++ binding site [ion binding]; other site 167879000232 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 167879000233 nucleotide binding region [chemical binding]; other site 167879000234 ATP-binding site [chemical binding]; other site 167879000235 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 167879000236 HRDC domain; Region: HRDC; pfam00570 167879000237 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 167879000238 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 167879000239 Fatty acid cis/trans isomerase (CTI); Region: CTI; pfam06934 167879000240 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 167879000241 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 167879000242 active site 167879000243 metal binding site [ion binding]; metal-binding site 167879000244 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 167879000245 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 167879000246 active site 167879000247 metal binding site [ion binding]; metal-binding site 167879000248 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 167879000249 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 167879000250 Predicted transcriptional regulator [Transcription]; Region: COG2345 167879000251 Adenosine deaminase z-alpha domain; Region: z-alpha; cl02659 167879000252 anaerobic ribonucleoside-triphosphate reductase; Region: RNR_anaer_Bdell; TIGR02827 167879000253 Class III ribonucleotide reductase; Region: RNR_III; cd01675 167879000254 effector binding site; other site 167879000255 active site 167879000256 Zn binding site [ion binding]; other site 167879000257 glycine loop; other site 167879000258 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: RNR_activ_nrdG3; TIGR02826 167879000259 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 167879000260 EamA-like transporter family; Region: EamA; pfam00892 167879000261 EamA-like transporter family; Region: EamA; pfam00892 167879000262 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 167879000263 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 167879000264 betaine aldehyde dehydrogenase; Region: PLN02467 167879000265 Arabidopsis betaine aldehyde dehydrogenase 1 and 2, ALDH family 10A8 and 10A9-like; Region: ALDH_F10_BADH; cd07110 167879000266 NAD(P) binding site [chemical binding]; other site 167879000267 catalytic residues [active] 167879000268 catalytic residues [active] 167879000269 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 167879000270 Protein of unknown function (DUF861); Region: Cupin_3; pfam05899 167879000271 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 167879000272 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 167879000273 tetrameric interface [polypeptide binding]; other site 167879000274 NAD binding site [chemical binding]; other site 167879000275 catalytic residues [active] 167879000276 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 167879000277 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 167879000278 inhibitor-cofactor binding pocket; inhibition site 167879000279 pyridoxal 5'-phosphate binding site [chemical binding]; other site 167879000280 catalytic residue [active] 167879000281 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879000282 Transcriptional regulator [Transcription]; Region: LysR; COG0583 167879000283 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 167879000284 dimerization interface [polypeptide binding]; other site 167879000285 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 167879000286 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 167879000287 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 167879000288 Mechanosensitive ion channel; Region: MS_channel; pfam00924 167879000289 hypothetical protein; Provisional; Region: PRK11239 167879000290 Protein of unknown function, DUF480; Region: DUF480; pfam04337 167879000291 hypothetical protein; Provisional; Region: PRK11820 167879000292 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 167879000293 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 167879000294 Electron transfer DM13; Region: DM13; pfam10517 167879000295 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 167879000296 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 167879000297 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 167879000298 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 167879000299 Thioredoxin-like; Region: Thioredoxin_7; pfam13899 167879000300 ribonuclease PH; Reviewed; Region: rph; PRK00173 167879000301 Ribonuclease PH; Region: RNase_PH_bact; cd11362 167879000302 hexamer interface [polypeptide binding]; other site 167879000303 active site 167879000304 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 167879000305 active site 167879000306 Esterase/lipase [General function prediction only]; Region: COG1647 167879000307 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 167879000308 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 167879000309 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 167879000310 active site 167879000311 ATP binding site [chemical binding]; other site 167879000312 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 167879000313 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 167879000314 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 167879000315 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 167879000316 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 167879000317 putative DNA binding site [nucleotide binding]; other site 167879000318 putative Zn2+ binding site [ion binding]; other site 167879000319 AsnC family; Region: AsnC_trans_reg; pfam01037 167879000320 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 167879000321 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 167879000322 substrate-cofactor binding pocket; other site 167879000323 pyridoxal 5'-phosphate binding site [chemical binding]; other site 167879000324 catalytic residue [active] 167879000325 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 167879000326 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 167879000327 NAD(P) binding site [chemical binding]; other site 167879000328 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 167879000329 active site residue [active] 167879000330 rhomboid family protease GlpG; Region: rhombo_GlpG; TIGR04239 167879000331 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 167879000332 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 167879000333 flagellar basal body-associated protein FliL-like protein; Validated; Region: PRK05697 167879000334 Chorismate lyase; Region: Chor_lyase; cl01230 167879000335 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 167879000336 UbiA prenyltransferase family; Region: UbiA; pfam01040 167879000337 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879000338 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879000339 metal binding site [ion binding]; metal-binding site 167879000340 active site 167879000341 I-site; other site 167879000342 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 167879000343 FIST N domain; Region: FIST; pfam08495 167879000344 FIST C domain; Region: FIST_C; pfam10442 167879000345 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 167879000346 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 167879000347 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 167879000348 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 167879000349 DctM-like transporters; Region: DctM; pfam06808 167879000350 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 167879000351 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 167879000352 putative acyl-acceptor binding pocket; other site 167879000353 Uncharacterized conserved protein [Function unknown]; Region: COG1432 167879000354 LabA_like proteins; Region: LabA_like/DUF88; cl10034 167879000355 putative metal binding site [ion binding]; other site 167879000356 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 167879000357 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 167879000358 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 167879000359 dimer interface [polypeptide binding]; other site 167879000360 ssDNA binding site [nucleotide binding]; other site 167879000361 tetramer (dimer of dimers) interface [polypeptide binding]; other site 167879000362 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 167879000363 generic binding surface I; other site 167879000364 generic binding surface II; other site 167879000365 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 167879000366 S-adenosylmethionine binding site [chemical binding]; other site 167879000367 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 167879000368 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 167879000369 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 167879000370 dimer interface [polypeptide binding]; other site 167879000371 putative CheW interface [polypeptide binding]; other site 167879000372 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 167879000373 catalytic triad [active] 167879000374 dimer interface [polypeptide binding]; other site 167879000375 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 167879000376 Ferritin-like domain; Region: Ferritin; pfam00210 167879000377 ferroxidase diiron center [ion binding]; other site 167879000378 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 167879000379 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 167879000380 DNA binding site [nucleotide binding] 167879000381 Predicted flavoproteins [General function prediction only]; Region: COG2081 167879000382 TAP-like protein; Region: Abhydrolase_4; pfam08386 167879000383 Predicted periplasmic protein [Function unknown]; Region: COG3904 167879000384 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 167879000385 DNA-binding site [nucleotide binding]; DNA binding site 167879000386 RNA-binding motif; other site 167879000387 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 167879000388 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 167879000389 Leucine rich repeat; Region: LRR_8; pfam13855 167879000390 Substrate binding site [chemical binding]; other site 167879000391 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 167879000392 active site 167879000393 ATP binding site [chemical binding]; other site 167879000394 substrate binding site [chemical binding]; other site 167879000395 activation loop (A-loop); other site 167879000396 SapC; Region: SapC; pfam07277 167879000397 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 167879000398 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 167879000399 Protein of unknown function (DUF416); Region: DUF416; pfam04222 167879000400 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 167879000401 Beta-lactamase; Region: Beta-lactamase; pfam00144 167879000402 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 167879000403 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 167879000404 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 167879000405 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 167879000406 DNA binding site [nucleotide binding] 167879000407 active site 167879000408 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 167879000409 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 167879000410 S-adenosylmethionine binding site [chemical binding]; other site 167879000411 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 167879000412 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 167879000413 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 167879000414 P loop; other site 167879000415 GTP binding site [chemical binding]; other site 167879000416 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 167879000417 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 167879000418 Walker A/P-loop; other site 167879000419 ATP binding site [chemical binding]; other site 167879000420 Q-loop/lid; other site 167879000421 ABC transporter signature motif; other site 167879000422 Walker B; other site 167879000423 D-loop; other site 167879000424 H-loop/switch region; other site 167879000425 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 167879000426 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 167879000427 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 167879000428 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 167879000429 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 167879000430 DNA binding residues [nucleotide binding] 167879000431 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 167879000432 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 167879000433 N-terminal plug; other site 167879000434 ligand-binding site [chemical binding]; other site 167879000435 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 167879000436 sec-independent translocase; Provisional; Region: PRK01770 167879000437 sec-independent translocase; Provisional; Region: tatB; PRK00404 167879000438 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 167879000439 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 167879000440 active site 167879000441 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879000442 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879000443 metal binding site [ion binding]; metal-binding site 167879000444 active site 167879000445 I-site; other site 167879000446 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 167879000447 dimer interface [polypeptide binding]; other site 167879000448 allosteric magnesium binding site [ion binding]; other site 167879000449 active site 167879000450 aspartate-rich active site metal binding site; other site 167879000451 Schiff base residues; other site 167879000452 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 167879000453 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 167879000454 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 167879000455 N-terminal domain interface [polypeptide binding]; other site 167879000456 dimer interface [polypeptide binding]; other site 167879000457 substrate binding pocket (H-site) [chemical binding]; other site 167879000458 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 167879000459 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 167879000460 exopolyphosphatase; Region: exo_poly_only; TIGR03706 167879000461 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 167879000462 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 167879000463 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 167879000464 ATP binding site [chemical binding]; other site 167879000465 Mg++ binding site [ion binding]; other site 167879000466 motif III; other site 167879000467 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 167879000468 nucleotide binding region [chemical binding]; other site 167879000469 ATP-binding site [chemical binding]; other site 167879000470 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 167879000471 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 167879000472 catalytic residues [active] 167879000473 transcription termination factor Rho; Provisional; Region: rho; PRK09376 167879000474 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 167879000475 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 167879000476 RNA binding site [nucleotide binding]; other site 167879000477 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 167879000478 multimer interface [polypeptide binding]; other site 167879000479 Walker A motif; other site 167879000480 ATP binding site [chemical binding]; other site 167879000481 Walker B motif; other site 167879000482 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 167879000483 FMN reductase; Validated; Region: fre; PRK08051 167879000484 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 167879000485 FAD binding pocket [chemical binding]; other site 167879000486 FAD binding motif [chemical binding]; other site 167879000487 phosphate binding motif [ion binding]; other site 167879000488 beta-alpha-beta structure motif; other site 167879000489 NAD binding pocket [chemical binding]; other site 167879000490 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 167879000491 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 167879000492 active site 167879000493 phosphorylation site [posttranslational modification] 167879000494 intermolecular recognition site; other site 167879000495 dimerization interface [polypeptide binding]; other site 167879000496 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 167879000497 DNA binding residues [nucleotide binding] 167879000498 dimerization interface [polypeptide binding]; other site 167879000499 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 167879000500 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 167879000501 metal binding site [ion binding]; metal-binding site 167879000502 dimer interface [polypeptide binding]; other site 167879000503 division inhibitor protein; Provisional; Region: slmA; PRK09480 167879000504 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 167879000505 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 167879000506 Flavoprotein; Region: Flavoprotein; pfam02441 167879000507 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 167879000508 hypothetical protein; Reviewed; Region: PRK00024 167879000509 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 167879000510 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 167879000511 DNA binding site [nucleotide binding] 167879000512 active site 167879000513 Int/Topo IB signature motif; other site 167879000514 Putative phage integrase; Region: Phage_Integr_2; pfam13009 167879000515 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 167879000516 DNA binding site [nucleotide binding] 167879000517 active site 167879000518 Int/Topo IB signature motif; other site 167879000519 catalytic residues [active] 167879000520 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 167879000521 AAA domain; Region: AAA_30; pfam13604 167879000522 Family description; Region: UvrD_C_2; pfam13538 167879000523 Protein of unknown function (DUF2393); Region: DUF2393; pfam09624 167879000524 hypothetical protein; Provisional; Region: PRK10039 167879000525 TPR repeat; Region: TPR_11; pfam13414 167879000526 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 167879000527 binding surface 167879000528 TPR motif; other site 167879000529 PilZ domain; Region: PilZ; pfam07238 167879000530 ParA-like protein; Provisional; Region: PHA02518 167879000531 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 167879000532 P-loop; other site 167879000533 Magnesium ion binding site [ion binding]; other site 167879000534 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 167879000535 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 167879000536 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 167879000537 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 167879000538 DNA binding site [nucleotide binding] 167879000539 catalytic residue [active] 167879000540 H2TH interface [polypeptide binding]; other site 167879000541 putative catalytic residues [active] 167879000542 turnover-facilitating residue; other site 167879000543 intercalation triad [nucleotide binding]; other site 167879000544 8OG recognition residue [nucleotide binding]; other site 167879000545 putative reading head residues; other site 167879000546 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 167879000547 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 167879000548 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 167879000549 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 167879000550 active site 167879000551 (T/H)XGH motif; other site 167879000552 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 167879000553 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 167879000554 Bacterial transcriptional repressor; Region: TetR; pfam13972 167879000555 SprA-related family; Region: SprA-related; pfam12118 167879000556 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 167879000557 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 167879000558 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 167879000559 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_1; cd06238 167879000560 putative active site [active] 167879000561 Zn binding site [ion binding]; other site 167879000562 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 167879000563 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 167879000564 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 167879000565 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 167879000566 Putative catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases which consist of a 5-stranded beta/alpha barrel; Region: CE4_DAC_u4_5s; cd10973 167879000567 putative active site [active] 167879000568 putative metal binding site [ion binding]; other site 167879000569 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 167879000570 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 167879000571 Cu(I) binding site [ion binding]; other site 167879000572 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 167879000573 UbiA prenyltransferase family; Region: UbiA; pfam01040 167879000574 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 167879000575 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 167879000576 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 167879000577 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 167879000578 Subunit III/VIIa interface [polypeptide binding]; other site 167879000579 Phospholipid binding site [chemical binding]; other site 167879000580 Subunit I/III interface [polypeptide binding]; other site 167879000581 Subunit III/VIb interface [polypeptide binding]; other site 167879000582 Subunit III/VIa interface; other site 167879000583 Subunit III/Vb interface [polypeptide binding]; other site 167879000584 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 167879000585 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 167879000586 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 167879000587 Subunit I/III interface [polypeptide binding]; other site 167879000588 D-pathway; other site 167879000589 Subunit I/VIIc interface [polypeptide binding]; other site 167879000590 Subunit I/IV interface [polypeptide binding]; other site 167879000591 Subunit I/II interface [polypeptide binding]; other site 167879000592 Low-spin heme (heme a) binding site [chemical binding]; other site 167879000593 Subunit I/VIIa interface [polypeptide binding]; other site 167879000594 Subunit I/VIa interface [polypeptide binding]; other site 167879000595 Dimer interface; other site 167879000596 Putative water exit pathway; other site 167879000597 Binuclear center (heme a3/CuB) [ion binding]; other site 167879000598 K-pathway; other site 167879000599 Subunit I/Vb interface [polypeptide binding]; other site 167879000600 Putative proton exit pathway; other site 167879000601 Subunit I/VIb interface; other site 167879000602 Subunit I/VIc interface [polypeptide binding]; other site 167879000603 Electron transfer pathway; other site 167879000604 Subunit I/VIIIb interface [polypeptide binding]; other site 167879000605 Subunit I/VIIb interface [polypeptide binding]; other site 167879000606 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 167879000607 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 167879000608 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 167879000609 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 167879000610 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 167879000611 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 167879000612 Cytochrome c; Region: Cytochrom_C; pfam00034 167879000613 LexA repressor; Validated; Region: PRK00215 167879000614 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 167879000615 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 167879000616 Catalytic site [active] 167879000617 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 167879000618 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 167879000619 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 167879000620 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 167879000621 SapC; Region: SapC; pfam07277 167879000622 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 167879000623 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 167879000624 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 167879000625 DNA binding residues [nucleotide binding] 167879000626 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 167879000627 FecR protein; Region: FecR; pfam04773 167879000628 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 167879000629 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 167879000630 putative substrate translocation pore; other site 167879000631 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 167879000632 glucokinase; Provisional; Region: glk; PRK00292 167879000633 glucokinase, proteobacterial type; Region: glk; TIGR00749 167879000634 HutD; Region: HutD; pfam05962 167879000635 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 167879000636 ThiC-associated domain; Region: ThiC-associated; pfam13667 167879000637 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 167879000638 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 167879000639 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 167879000640 thiS-thiF/thiG interaction site; other site 167879000641 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 167879000642 ThiS interaction site; other site 167879000643 putative active site [active] 167879000644 tetramer interface [polypeptide binding]; other site 167879000645 HMP-P kinase/thiamin-monophosphate pyrophosphorylase; Region: PLN02898 167879000646 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 167879000647 substrate binding site [chemical binding]; other site 167879000648 ATP binding site [chemical binding]; other site 167879000649 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 167879000650 thiamine phosphate binding site [chemical binding]; other site 167879000651 active site 167879000652 pyrophosphate binding site [ion binding]; other site 167879000653 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 167879000654 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 167879000655 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 167879000656 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 167879000657 putative catalytic residues [active] 167879000658 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 167879000659 phosphoglycolate phosphatase; Provisional; Region: PRK13222 167879000660 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 167879000661 active site 167879000662 motif I; other site 167879000663 motif II; other site 167879000664 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 167879000665 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 167879000666 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 167879000667 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 167879000668 hypothetical protein; Provisional; Region: PRK10621 167879000669 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 167879000670 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 167879000671 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 167879000672 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 167879000673 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 167879000674 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, 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...; Region: Met_dep_hydrolase_A; cd01299 167879000675 active site 167879000676 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 167879000677 Helix-turn-helix domain; Region: HTH_18; pfam12833 167879000678 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 167879000679 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits of...; Region: NorE_like; cd02862 167879000680 Subunit I/III interface [polypeptide binding]; other site 167879000681 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 167879000682 4Fe-4S binding domain; Region: Fer4_5; pfam12801 167879000683 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 167879000684 PAS domain S-box; Region: sensory_box; TIGR00229 167879000685 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; cd00130 167879000686 putative active site [active] 167879000687 heme pocket [chemical binding]; other site 167879000688 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 167879000689 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 167879000690 Walker A motif; other site 167879000691 ATP binding site [chemical binding]; other site 167879000692 Walker B motif; other site 167879000693 arginine finger; other site 167879000694 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 167879000695 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cl00246 167879000696 FAD binding site [chemical binding]; other site 167879000697 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 167879000698 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 167879000699 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 167879000700 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 167879000701 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 167879000702 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 167879000703 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 167879000704 catalytic loop [active] 167879000705 iron binding site [ion binding]; other site 167879000706 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 167879000707 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 167879000708 Ligand binding site; other site 167879000709 metal-binding site 167879000710 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 167879000711 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 167879000712 XdhC Rossmann domain; Region: XdhC_C; pfam13478 167879000713 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 167879000714 mce related protein; Region: MCE; pfam02470 167879000715 mce related protein; Region: MCE; pfam02470 167879000716 mce related protein; Region: MCE; pfam02470 167879000717 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 167879000718 mce related protein; Region: MCE; pfam02470 167879000719 mce related protein; Region: MCE; pfam02470 167879000720 mce related protein; Region: MCE; pfam02470 167879000721 Cytochrome c553 [Energy production and conversion]; Region: COG2863 167879000722 Cytochrome c553 [Energy production and conversion]; Region: COG2863 167879000723 Cytochrome c; Region: Cytochrom_C; cl11414 167879000724 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 167879000725 G1 box; other site 167879000726 GTP/Mg2+ binding site [chemical binding]; other site 167879000727 Switch I region; other site 167879000728 G2 box; other site 167879000729 G3 box; other site 167879000730 Switch II region; other site 167879000731 G4 box; other site 167879000732 G5 box; other site 167879000733 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 167879000734 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 167879000735 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 167879000736 Walker A/P-loop; other site 167879000737 ATP binding site [chemical binding]; other site 167879000738 Q-loop/lid; other site 167879000739 ABC transporter signature motif; other site 167879000740 Walker B; other site 167879000741 D-loop; other site 167879000742 H-loop/switch region; other site 167879000743 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 167879000744 HDOD domain; Region: HDOD; pfam08668 167879000745 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 167879000746 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 167879000747 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 167879000748 HlyD family secretion protein; Region: HlyD_3; pfam13437 167879000749 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 167879000750 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 167879000751 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 167879000752 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 167879000753 Coenzyme A binding pocket [chemical binding]; other site 167879000754 Flagellar protein YcgR; Region: YcgR_2; pfam12945 167879000755 PilZ domain; Region: PilZ; pfam07238 167879000756 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 167879000757 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 167879000758 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 167879000759 S-adenosylmethionine binding site [chemical binding]; other site 167879000760 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 167879000761 SCP-2 sterol transfer family; Region: SCP2; pfam02036 167879000762 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 167879000763 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 167879000764 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 167879000765 Part of AAA domain; Region: AAA_19; pfam13245 167879000766 Family description; Region: UvrD_C_2; pfam13538 167879000767 Membrane fusogenic activity; Region: BMFP; pfam04380 167879000768 phosphomannomutase CpsG; Provisional; Region: PRK15414 167879000769 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 167879000770 active site 167879000771 substrate binding site [chemical binding]; other site 167879000772 metal binding site [ion binding]; metal-binding site 167879000773 exosortase A system-associated hydrolase 2; Region: hydr2_PEP; TIGR03101 167879000774 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 167879000775 exosortase A system-associated hydrolase 1; Region: hydr1_PEP; TIGR03100 167879000776 exosortase A system-associated hydrolase 1; Region: hydr1_PEP; TIGR03100 167879000777 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 167879000778 active site 167879000779 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 167879000780 homodimer interface [polypeptide binding]; other site 167879000781 nucleotide sugar dehydrogenase; Region: NDP-sugDHase; TIGR03026 167879000782 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 167879000783 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 167879000784 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 167879000785 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 167879000786 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 167879000787 binding surface 167879000788 TPR motif; other site 167879000789 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 167879000790 TPR motif; other site 167879000791 binding surface 167879000792 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 167879000793 binding surface 167879000794 TPR motif; other site 167879000795 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 167879000796 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 167879000797 binding surface 167879000798 TPR motif; other site 167879000799 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 167879000800 binding surface 167879000801 TPR motif; other site 167879000802 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 167879000803 TPR motif; other site 167879000804 binding surface 167879000805 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 167879000806 binding surface 167879000807 TPR motif; other site 167879000808 Cytochrome c553 [Energy production and conversion]; Region: COG2863 167879000809 Protein of unknown function (DUF3630); Region: DUF3630; pfam12305 167879000810 Protein of unknown function (DUF523); Region: DUF523; pfam04463 167879000811 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 167879000812 epoxyqueuosine reductase; Region: TIGR00276 167879000813 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 167879000814 putative carbohydrate kinase; Provisional; Region: PRK10565 167879000815 Uncharacterized conserved protein [Function unknown]; Region: COG0062 167879000816 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 167879000817 putative substrate binding site [chemical binding]; other site 167879000818 putative ATP binding site [chemical binding]; other site 167879000819 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 167879000820 AMIN domain; Region: AMIN; pfam11741 167879000821 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 167879000822 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 167879000823 active site 167879000824 metal binding site [ion binding]; metal-binding site 167879000825 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 167879000826 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 167879000827 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c_3; pfam13589 167879000828 ATP binding site [chemical binding]; other site 167879000829 Mg2+ binding site [ion binding]; other site 167879000830 G-X-G motif; other site 167879000831 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 167879000832 ATP binding site [chemical binding]; other site 167879000833 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 167879000834 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 167879000835 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 167879000836 bacterial Hfq-like; Region: Hfq; cd01716 167879000837 hexamer interface [polypeptide binding]; other site 167879000838 Sm1 motif; other site 167879000839 RNA binding site [nucleotide binding]; other site 167879000840 Sm2 motif; other site 167879000841 GTPase HflX; Provisional; Region: PRK11058 167879000842 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 167879000843 HflX GTPase family; Region: HflX; cd01878 167879000844 G1 box; other site 167879000845 GTP/Mg2+ binding site [chemical binding]; other site 167879000846 Switch I region; other site 167879000847 G2 box; other site 167879000848 G3 box; other site 167879000849 Switch II region; other site 167879000850 G4 box; other site 167879000851 G5 box; other site 167879000852 FtsH protease regulator HflK; Provisional; Region: PRK10930 167879000853 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 167879000854 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 167879000855 FtsH protease regulator HflC; Provisional; Region: PRK11029 167879000856 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 167879000857 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 167879000858 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 167879000859 GDP-binding site [chemical binding]; other site 167879000860 ACT binding site; other site 167879000861 IMP binding site; other site 167879000862 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 167879000863 Malic enzyme, N-terminal domain; Region: malic; pfam00390 167879000864 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 167879000865 putative NAD(P) binding site [chemical binding]; other site 167879000866 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 167879000867 catalytic core [active] 167879000868 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 167879000869 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 167879000870 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 167879000871 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 167879000872 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 167879000873 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 167879000874 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 167879000875 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 167879000876 S-adenosylmethionine binding site [chemical binding]; other site 167879000877 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 167879000878 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 167879000879 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 167879000880 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 167879000881 FMN binding site [chemical binding]; other site 167879000882 active site 167879000883 catalytic residues [active] 167879000884 substrate binding site [chemical binding]; other site 167879000885 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 167879000886 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 167879000887 active site 167879000888 DNA binding site [nucleotide binding] 167879000889 Int/Topo IB signature motif; other site 167879000890 PEP-CTERM motif; Region: VPEP; pfam07589 167879000891 putative assembly protein; Region: PHA00350 167879000892 Zonular occludens toxin (Zot); Region: Zot; cl17485 167879000893 hypothetical protein; Region: PHA01159 167879000894 Replication initiation factor; Region: Rep_trans; pfam02486 167879000895 Pyocin activator protein PrtN; Region: PyocinActivator; pfam11112 167879000896 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 167879000897 DNA binding residues [nucleotide binding] 167879000898 Predicted transcriptional regulator [Transcription]; Region: COG2932 167879000899 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 167879000900 Catalytic site [active] 167879000901 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 167879000902 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 167879000903 Transposase; Region: DEDD_Tnp_IS110; pfam01548 167879000904 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 167879000905 PEP-CTERM protein-sorting domain; Region: PEP_exosort; TIGR02595 167879000906 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 167879000907 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 167879000908 Coenzyme A binding pocket [chemical binding]; other site 167879000909 PEP-CTERM motif; Region: VPEP; pfam07589 167879000910 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 167879000911 agmatinase; Region: agmatinase; TIGR01230 167879000912 oligomer interface [polypeptide binding]; other site 167879000913 putative active site [active] 167879000914 Mn binding site [ion binding]; other site 167879000915 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 167879000916 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 167879000917 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 167879000918 NAD binding site [chemical binding]; other site 167879000919 catalytic residues [active] 167879000920 Amino acid permease; Region: AA_permease_2; pfam13520 167879000921 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 167879000922 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 167879000923 DNA binding residues [nucleotide binding] 167879000924 dimerization interface [polypeptide binding]; other site 167879000925 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 167879000926 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 167879000927 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 167879000928 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 167879000929 DHHA2 domain; Region: DHHA2; pfam02833 167879000930 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 167879000931 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 167879000932 dimer interface [polypeptide binding]; other site 167879000933 active site 167879000934 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 167879000935 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 167879000936 substrate binding site [chemical binding]; other site 167879000937 oxyanion hole (OAH) forming residues; other site 167879000938 trimer interface [polypeptide binding]; other site 167879000939 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 167879000940 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 167879000941 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 167879000942 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 167879000943 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 167879000944 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879000945 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879000946 metal binding site [ion binding]; metal-binding site 167879000947 active site 167879000948 I-site; other site 167879000949 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 167879000950 Protein of unknown function (DUF2806); Region: DUF2806; pfam10987 167879000951 MerC mercury resistance protein; Region: MerC; pfam03203 167879000952 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 167879000953 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 167879000954 active site 167879000955 phosphorylation site [posttranslational modification] 167879000956 intermolecular recognition site; other site 167879000957 dimerization interface [polypeptide binding]; other site 167879000958 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 167879000959 Walker A motif; other site 167879000960 ATP binding site [chemical binding]; other site 167879000961 Walker B motif; other site 167879000962 arginine finger; other site 167879000963 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 167879000964 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 167879000965 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 167879000966 dimer interface [polypeptide binding]; other site 167879000967 phosphorylation site [posttranslational modification] 167879000968 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 167879000969 ATP binding site [chemical binding]; other site 167879000970 Mg2+ binding site [ion binding]; other site 167879000971 G-X-G motif; other site 167879000972 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 167879000973 glutamine synthetase; Provisional; Region: glnA; PRK09469 167879000974 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 167879000975 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 167879000976 Protein of unknown function, DUF481; Region: DUF481; pfam04338 167879000977 Protein of unknown function, DUF481; Region: DUF481; pfam04338 167879000978 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 167879000979 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 167879000980 FAD binding pocket [chemical binding]; other site 167879000981 FAD binding motif [chemical binding]; other site 167879000982 phosphate binding motif [ion binding]; other site 167879000983 beta-alpha-beta structure motif; other site 167879000984 NAD binding pocket [chemical binding]; other site 167879000985 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 167879000986 catalytic loop [active] 167879000987 iron binding site [ion binding]; other site 167879000988 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 167879000989 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 167879000990 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 167879000991 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 167879000992 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 167879000993 active site 167879000994 catalytic residues [active] 167879000995 metal binding site [ion binding]; metal-binding site 167879000996 aromatic acid decarboxylase; Validated; Region: PRK05920 167879000997 Flavoprotein; Region: Flavoprotein; pfam02441 167879000998 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 167879000999 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 167879001000 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 167879001001 Zn binding site [ion binding]; other site 167879001002 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 167879001003 metal binding site 2 [ion binding]; metal-binding site 167879001004 putative DNA binding helix; other site 167879001005 metal binding site 1 [ion binding]; metal-binding site 167879001006 dimer interface [polypeptide binding]; other site 167879001007 structural Zn2+ binding site [ion binding]; other site 167879001008 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4299 167879001009 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 167879001010 primosomal replication protein N; Provisional; Region: PRK02801 167879001011 generic binding surface II; other site 167879001012 generic binding surface I; other site 167879001013 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 167879001014 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 167879001015 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 167879001016 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 167879001017 Surface antigen; Region: Bac_surface_Ag; pfam01103 167879001018 Transcriptional regulator [Transcription]; Region: LysR; COG0583 167879001019 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879001020 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 167879001021 substrate binding pocket [chemical binding]; other site 167879001022 dimerization interface [polypeptide binding]; other site 167879001023 Transcriptional regulator [Transcription]; Region: LysR; COG0583 167879001024 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879001025 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 167879001026 dimerization interface [polypeptide binding]; other site 167879001027 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 167879001028 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 167879001029 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 167879001030 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 167879001031 motif II; other site 167879001032 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 167879001033 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 167879001034 dimer interface [polypeptide binding]; other site 167879001035 ADP-ribose binding site [chemical binding]; other site 167879001036 active site 167879001037 nudix motif; other site 167879001038 metal binding site [ion binding]; metal-binding site 167879001039 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 167879001040 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 167879001041 active site 167879001042 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 167879001043 hypothetical protein; Provisional; Region: PRK04966 167879001044 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 167879001045 Sel1-like repeats; Region: SEL1; smart00671 167879001046 Sel1-like repeats; Region: SEL1; smart00671 167879001047 Sel1-like repeats; Region: SEL1; smart00671 167879001048 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 167879001049 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 167879001050 Walker A/P-loop; other site 167879001051 ATP binding site [chemical binding]; other site 167879001052 Q-loop/lid; other site 167879001053 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 167879001054 ABC transporter signature motif; other site 167879001055 Walker B; other site 167879001056 D-loop; other site 167879001057 ABC transporter; Region: ABC_tran_2; pfam12848 167879001058 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 167879001059 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 167879001060 SlyX; Region: SlyX; pfam04102 167879001061 FOG: WD40 repeat [General function prediction only]; Region: COG2319 167879001062 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 167879001063 structural tetrad; other site 167879001064 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 167879001065 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 167879001066 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 167879001067 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 167879001068 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; cd01635 167879001069 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 167879001070 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 167879001071 legume lectins; Region: lectin_L-type; cl14058 167879001072 homodimer interaction site [polypeptide binding]; other site 167879001073 homotetramer interaction site [polypeptide binding]; other site 167879001074 carbohydrate binding site [chemical binding]; other site 167879001075 metal binding site [ion binding]; metal-binding site 167879001076 superoxide dismutase, Ni; Region: sodN; TIGR02753 167879001077 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 167879001078 Catalytic site [active] 167879001079 Protein of unknown function VcgC/VcgE (DUF2780); Region: DUF2780; pfam11075 167879001080 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 167879001081 substrate binding site [chemical binding]; other site 167879001082 active site 167879001083 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 167879001084 DNA-binding site [nucleotide binding]; DNA binding site 167879001085 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 167879001086 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 167879001087 Walker A/P-loop; other site 167879001088 ATP binding site [chemical binding]; other site 167879001089 Q-loop/lid; other site 167879001090 ABC transporter signature motif; other site 167879001091 Walker B; other site 167879001092 D-loop; other site 167879001093 H-loop/switch region; other site 167879001094 PAS fold; Region: PAS_4; pfam08448 167879001095 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; cd00130 167879001096 putative active site [active] 167879001097 heme pocket [chemical binding]; other site 167879001098 PAS fold; Region: PAS_4; pfam08448 167879001099 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; cd00130 167879001100 putative active site [active] 167879001101 heme pocket [chemical binding]; other site 167879001102 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879001103 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879001104 metal binding site [ion binding]; metal-binding site 167879001105 active site 167879001106 I-site; other site 167879001107 transcriptional repressor protein MetJ; Provisional; Region: PRK05264 167879001108 dimerization interface [polypeptide binding]; other site 167879001109 DNA binding site [nucleotide binding] 167879001110 corepressor binding sites; other site 167879001111 O-succinylhomoserine (thiol)-lyase; Region: O_succ_thio_ly; TIGR02080 167879001112 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 167879001113 homodimer interface [polypeptide binding]; other site 167879001114 substrate-cofactor binding pocket; other site 167879001115 pyridoxal 5'-phosphate binding site [chemical binding]; other site 167879001116 catalytic residue [active] 167879001117 bifunctional aspartate kinase II/homoserine dehydrogenase II; Provisional; Region: metL; PRK09466 167879001118 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 167879001119 putative catalytic residues [active] 167879001120 putative nucleotide binding site [chemical binding]; other site 167879001121 putative aspartate binding site [chemical binding]; other site 167879001122 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 167879001123 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 167879001124 acetylornithine deacetylase; Provisional; Region: PRK05111 167879001125 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 167879001126 metal binding site [ion binding]; metal-binding site 167879001127 putative dimer interface [polypeptide binding]; other site 167879001128 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 167879001129 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 167879001130 AAK_NAGK-NC: N-Acetyl-L-glutamate kinase - noncyclic (NAGK-NC) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of microbial arginine biosynthesis using the acetylated, noncyclic route of...; Region: AAK_NAGK-NC; cd04249 167879001131 nucleotide binding site [chemical binding]; other site 167879001132 N-acetyl-L-glutamate binding site [chemical binding]; other site 167879001133 ornithine carbamoyltransferase; Provisional; Region: PRK14805 167879001134 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 167879001135 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 167879001136 argininosuccinate synthase; Provisional; Region: PRK13820 167879001137 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 167879001138 ANP binding site [chemical binding]; other site 167879001139 Substrate Binding Site II [chemical binding]; other site 167879001140 Substrate Binding Site I [chemical binding]; other site 167879001141 bifunctional argininosuccinate lyase/N-acetylglutamate synthase; Provisional; Region: PRK12308 167879001142 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 167879001143 active sites [active] 167879001144 tetramer interface [polypeptide binding]; other site 167879001145 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 167879001146 Coenzyme A binding pocket [chemical binding]; other site 167879001147 N-acetylglutamate synthase; Validated; Region: PRK05279 167879001148 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 167879001149 putative feedback inhibition sensing region; other site 167879001150 putative nucleotide binding site [chemical binding]; other site 167879001151 putative substrate binding site [chemical binding]; other site 167879001152 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 167879001153 Coenzyme A binding pocket [chemical binding]; other site 167879001154 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 167879001155 Transglycosylase; Region: Transgly; pfam00912 167879001156 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 167879001157 Competence protein A; Region: Competence_A; pfam11104 167879001158 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 167879001159 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 167879001160 Pilus assembly protein, PilO; Region: PilO; pfam04350 167879001161 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 167879001162 Pilus assembly protein, PilP; Region: PilP; pfam04351 167879001163 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 167879001164 Secretin and TonB N terminus short domain; Region: STN; smart00965 167879001165 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 167879001166 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 167879001167 shikimate kinase; Reviewed; Region: aroK; PRK00131 167879001168 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 167879001169 ADP binding site [chemical binding]; other site 167879001170 magnesium binding site [ion binding]; other site 167879001171 putative shikimate binding site; other site 167879001172 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 167879001173 active site 167879001174 dimer interface [polypeptide binding]; other site 167879001175 metal binding site [ion binding]; metal-binding site 167879001176 AAA domain; Region: AAA_22; pfam13401 167879001177 cell division protein DamX; Validated; Region: PRK10905 167879001178 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 167879001179 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 167879001180 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 167879001181 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 167879001182 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 167879001183 substrate binding site [chemical binding]; other site 167879001184 hexamer interface [polypeptide binding]; other site 167879001185 metal binding site [ion binding]; metal-binding site 167879001186 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 167879001187 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 167879001188 active site 167879001189 HIGH motif; other site 167879001190 dimer interface [polypeptide binding]; other site 167879001191 KMSKS motif; other site 167879001192 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 167879001193 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 167879001194 phosphopeptide binding site; other site 167879001195 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 167879001196 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 167879001197 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 167879001198 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 167879001199 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 167879001200 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 167879001201 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 167879001202 N-terminal plug; other site 167879001203 ligand-binding site [chemical binding]; other site 167879001204 Protein of unknown function (DUF419); Region: DUF419; pfam04237 167879001205 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 167879001206 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 167879001207 catalytic residues [active] 167879001208 catalytic nucleophile [active] 167879001209 Recombinase; Region: Recombinase; pfam07508 167879001210 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 167879001211 AAA domain; Region: AAA_21; pfam13304 167879001212 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 167879001213 active site 167879001214 Protein of unknown function (DUF419); Region: DUF419; pfam04237 167879001215 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 167879001216 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 167879001217 DNA methylase; Region: N6_N4_Mtase; pfam01555 167879001218 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 167879001219 Protein of unknown function (DUF419); Region: DUF419; cl15265 167879001220 Alpha amylase catalytic domain found in sucrose phosphorylase-like proteins (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase-like_1; cd11356 167879001221 active site 167879001222 homodimer interface [polypeptide binding]; other site 167879001223 catalytic site [active] 167879001224 putative glucosyl-3-phosphoglycerate synthase; Provisional; Region: PRK13915 167879001225 mannosyl-3-phosphoglycerate phosphatase; Reviewed; Region: PRK00192 167879001226 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 167879001227 active site 167879001228 motif I; other site 167879001229 motif II; other site 167879001230 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; cl17915 167879001231 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 167879001232 active site 167879001233 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 167879001234 Protein of unknown function (DUF3667); Region: DUF3667; pfam12412 167879001235 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; pfam08547 167879001236 Tryptophan-rich protein (DUF2389); Region: DUF2389; pfam09493 167879001237 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 167879001238 C factor cell-cell signaling protein; Provisional; Region: PRK09009 167879001239 NAD(P) binding site [chemical binding]; other site 167879001240 active site 167879001241 Protein of unknown function, DUF393; Region: DUF393; pfam04134 167879001242 Flavin Reductases; Region: FlaRed; cl00801 167879001243 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 167879001244 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 167879001245 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 167879001246 active site 167879001247 Protein of unknown function (DUF3081); Region: DUF3081; pfam11280 167879001248 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 167879001249 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 167879001250 motif II; other site 167879001251 N-acyl amino acid synthase, PEP-CTERM/exosortase system-associated; Region: exosort_acyl; TIGR03694 167879001252 N-acyl amino acid synthase, PEP-CTERM/exosortase system-associated; Region: exosort_acyl; TIGR03694 167879001253 FAD binding domain; Region: FAD_binding_4; pfam01565 167879001254 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 167879001255 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 167879001256 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 167879001257 binding surface 167879001258 TPR motif; other site 167879001259 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 167879001260 binding surface 167879001261 TPR motif; other site 167879001262 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 167879001263 binding surface 167879001264 TPR motif; other site 167879001265 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 167879001266 binding surface 167879001267 TPR motif; other site 167879001268 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 167879001269 binding surface 167879001270 TPR motif; other site 167879001271 Transcriptional regulator [Transcription]; Region: LysR; COG0583 167879001272 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879001273 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 167879001274 dimerization interface [polypeptide binding]; other site 167879001275 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 167879001276 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 167879001277 active site 167879001278 metal binding site [ion binding]; metal-binding site 167879001279 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 167879001280 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 167879001281 Amidohydrolase; Region: Amidohydro_4; pfam13147 167879001282 active site 167879001283 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 167879001284 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 167879001285 active site 167879001286 siroheme synthase, N-terminal domain; Region: cysG_Nterm; TIGR01470 167879001287 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 167879001288 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 167879001289 S-AdoMet dependent tetrapyrrole methylases; Region: TP_methylase; cl00304 167879001290 ribonuclease activity regulator protein RraA; Reviewed; Region: PRK12487 167879001291 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 167879001292 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 167879001293 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879001294 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879001295 metal binding site [ion binding]; metal-binding site 167879001296 active site 167879001297 I-site; other site 167879001298 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 167879001299 homodimer interface [polypeptide binding]; other site 167879001300 active site 167879001301 SAM binding site [chemical binding]; other site 167879001302 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 167879001303 Tetratricopeptide repeat; Region: TPR_12; pfam13424 167879001304 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879001305 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879001306 metal binding site [ion binding]; metal-binding site 167879001307 active site 167879001308 I-site; other site 167879001309 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 167879001310 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 167879001311 Pepsin-like aspartic proteases, bilobal enzymes that cleave bonds in peptides at acidic pH; Region: pepsin_like; cd05471 167879001312 inhibitor binding site; inhibition site 167879001313 catalytic motif [active] 167879001314 catalytic residue [active] 167879001315 Active site flap [active] 167879001316 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 167879001317 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 167879001318 FMN binding site [chemical binding]; other site 167879001319 active site 167879001320 catalytic residues [active] 167879001321 substrate binding site [chemical binding]; other site 167879001322 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 167879001323 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 167879001324 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 167879001325 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 167879001326 purine monophosphate binding site [chemical binding]; other site 167879001327 dimer interface [polypeptide binding]; other site 167879001328 putative catalytic residues [active] 167879001329 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 167879001330 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 167879001331 Predicted methyltransferase [General function prediction only]; Region: COG4798 167879001332 Methyltransferase domain; Region: Methyltransf_23; pfam13489 167879001333 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 167879001334 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 167879001335 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 167879001336 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 167879001337 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 167879001338 enoyl-CoA hydratase; Provisional; Region: PRK07509 167879001339 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 167879001340 substrate binding site [chemical binding]; other site 167879001341 oxyanion hole (OAH) forming residues; other site 167879001342 trimer interface [polypeptide binding]; other site 167879001343 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 167879001344 HlyD family secretion protein; Region: HlyD_3; pfam13437 167879001345 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 167879001346 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 167879001347 Walker A/P-loop; other site 167879001348 ATP binding site [chemical binding]; other site 167879001349 Q-loop/lid; other site 167879001350 ABC transporter signature motif; other site 167879001351 Walker B; other site 167879001352 D-loop; other site 167879001353 H-loop/switch region; other site 167879001354 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 167879001355 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 167879001356 FtsX-like permease family; Region: FtsX; pfam02687 167879001357 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 167879001358 FtsX-like permease family; Region: FtsX; pfam02687 167879001359 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 167879001360 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 167879001361 active site 167879001362 phosphorylation site [posttranslational modification] 167879001363 intermolecular recognition site; other site 167879001364 dimerization interface [polypeptide binding]; other site 167879001365 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 167879001366 Walker A motif; other site 167879001367 ATP binding site [chemical binding]; other site 167879001368 Walker B motif; other site 167879001369 arginine finger; other site 167879001370 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 167879001371 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 167879001372 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 167879001373 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 167879001374 ATP binding site [chemical binding]; other site 167879001375 Mg2+ binding site [ion binding]; other site 167879001376 G-X-G motif; other site 167879001377 polysaccharide export protein Wza; Provisional; Region: PRK15078 167879001378 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 167879001379 SLBB domain; Region: SLBB; pfam10531 167879001380 Low molecular weight phosphatase family; Region: LMWPc; cd00115 167879001381 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 167879001382 active site 167879001383 tyrosine kinase; Provisional; Region: PRK11519 167879001384 Chain length determinant protein; Region: Wzz; pfam02706 167879001385 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 167879001386 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 167879001387 Nucleotide binding site [chemical binding]; other site 167879001388 P loop; other site 167879001389 DTAP/Switch II; other site 167879001390 Switch I; other site 167879001391 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 167879001392 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 167879001393 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 167879001394 Ligand Binding Site [chemical binding]; other site 167879001395 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 167879001396 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 167879001397 putative ADP-binding pocket [chemical binding]; other site 167879001398 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 167879001399 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 167879001400 Ligand Binding Site [chemical binding]; other site 167879001401 Molecular Tunnel; other site 167879001402 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 167879001403 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 167879001404 putative ADP-binding pocket [chemical binding]; other site 167879001405 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 167879001406 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 167879001407 putative NAD(P) binding site [chemical binding]; other site 167879001408 active site 167879001409 putative substrate binding site [chemical binding]; other site 167879001410 Bacterial sugar transferase; Region: Bac_transf; pfam02397 167879001411 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 167879001412 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 167879001413 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 167879001414 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 167879001415 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 167879001416 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 167879001417 putative NAD(P) binding site [chemical binding]; other site 167879001418 active site 167879001419 putative substrate binding site [chemical binding]; other site 167879001420 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 167879001421 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 167879001422 active site 167879001423 tetramer interface; other site 167879001424 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 167879001425 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 167879001426 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 167879001427 NAD(P) binding site [chemical binding]; other site 167879001428 homodimer interface [polypeptide binding]; other site 167879001429 substrate binding site [chemical binding]; other site 167879001430 active site 167879001431 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 167879001432 Protein of unknown function (DUF3897); Region: DUF3897; pfam13036 167879001433 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 167879001434 putative dimer interface [polypeptide binding]; other site 167879001435 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 167879001436 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 167879001437 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 167879001438 Cytochrome c; Region: Cytochrom_C; pfam00034 167879001439 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 167879001440 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 167879001441 Low-spin heme binding site [chemical binding]; other site 167879001442 D-pathway; other site 167879001443 K-pathway; other site 167879001444 Binuclear center (active site) [active] 167879001445 Putative proton exit pathway; other site 167879001446 Putative water exit pathway; other site 167879001447 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 167879001448 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 167879001449 5-histidylcysteine sulfoxide synthase; Region: ovoA_Nterm; TIGR04344 167879001450 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 167879001451 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 167879001452 S-adenosylmethionine binding site [chemical binding]; other site 167879001453 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 167879001454 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 167879001455 G1 box; other site 167879001456 putative GEF interaction site [polypeptide binding]; other site 167879001457 GTP/Mg2+ binding site [chemical binding]; other site 167879001458 Switch I region; other site 167879001459 G2 box; other site 167879001460 G3 box; other site 167879001461 Switch II region; other site 167879001462 G4 box; other site 167879001463 G5 box; other site 167879001464 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 167879001465 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 167879001466 hypothetical protein; Reviewed; Region: PRK01637 167879001467 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 167879001468 putative active site [active] 167879001469 dimerization interface [polypeptide binding]; other site 167879001470 putative tRNAtyr binding site [nucleotide binding]; other site 167879001471 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 167879001472 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 167879001473 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 167879001474 RNA binding site [nucleotide binding]; other site 167879001475 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 167879001476 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 167879001477 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 167879001478 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 167879001479 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 167879001480 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 167879001481 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 167879001482 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 167879001483 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 167879001484 5S rRNA interface [nucleotide binding]; other site 167879001485 23S rRNA interface [nucleotide binding]; other site 167879001486 L5 interface [polypeptide binding]; other site 167879001487 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 167879001488 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 167879001489 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 167879001490 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 167879001491 23S rRNA binding site [nucleotide binding]; other site 167879001492 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 167879001493 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 167879001494 SecY translocase; Region: SecY; pfam00344 167879001495 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 167879001496 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 167879001497 30S ribosomal protein S13; Region: bact_S13; TIGR03631 167879001498 30S ribosomal protein S11; Validated; Region: PRK05309 167879001499 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 167879001500 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 167879001501 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 167879001502 RNA binding surface [nucleotide binding]; other site 167879001503 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 167879001504 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 167879001505 alphaNTD homodimer interface [polypeptide binding]; other site 167879001506 alphaNTD - beta interaction site [polypeptide binding]; other site 167879001507 alphaNTD - beta' interaction site [polypeptide binding]; other site 167879001508 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 167879001509 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 167879001510 phosphoribulokinase; Provisional; Region: PRK15453 167879001511 active site 167879001512 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 167879001513 binding surface 167879001514 TPR motif; other site 167879001515 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879001516 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879001517 metal binding site [ion binding]; metal-binding site 167879001518 active site 167879001519 I-site; other site 167879001520 S-adenosylmethionine decarboxylase; Provisional; Region: PRK05462 167879001521 OsmC-like protein; Region: OsmC; cl00767 167879001522 Protein of unknown function (DUF3802); Region: DUF3802; pfam12290 167879001523 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 167879001524 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 167879001525 putative active site [active] 167879001526 Zn binding site [ion binding]; other site 167879001527 succinylglutamic semialdehyde dehydrogenase; Region: arg_catab_astD; TIGR03240 167879001528 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 167879001529 NAD(P) binding site [chemical binding]; other site 167879001530 catalytic residues [active] 167879001531 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 167879001532 Arginine N-succinyltransferase beta subunit; Region: AstA; pfam04958 167879001533 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 167879001534 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 167879001535 inhibitor-cofactor binding pocket; inhibition site 167879001536 pyridoxal 5'-phosphate binding site [chemical binding]; other site 167879001537 catalytic residue [active] 167879001538 HDOD domain; Region: HDOD; pfam08668 167879001539 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 167879001540 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 167879001541 glutamine binding [chemical binding]; other site 167879001542 catalytic triad [active] 167879001543 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 167879001544 catalytic residues [active] 167879001545 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 167879001546 Nitrogen regulatory protein P-II; Region: P-II; smart00938 167879001547 probable ammonium transporter, marine subtype; Region: marine_trans_1; TIGR03644 167879001548 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 167879001549 active site 167879001550 GlyGly-CTERM domain; Region: GlyGly_CTERM; TIGR03501 167879001551 FeoA domain; Region: FeoA; pfam04023 167879001552 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 167879001553 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 167879001554 G1 box; other site 167879001555 GTP/Mg2+ binding site [chemical binding]; other site 167879001556 Switch I region; other site 167879001557 G2 box; other site 167879001558 G3 box; other site 167879001559 Switch II region; other site 167879001560 G4 box; other site 167879001561 G5 box; other site 167879001562 Nucleoside recognition; Region: Gate; pfam07670 167879001563 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 167879001564 6-phosphofructokinase; Provisional; Region: PRK03202 167879001565 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 167879001566 active site 167879001567 ADP/pyrophosphate binding site [chemical binding]; other site 167879001568 dimerization interface [polypeptide binding]; other site 167879001569 allosteric effector site; other site 167879001570 fructose-1,6-bisphosphate binding site; other site 167879001571 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 167879001572 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 167879001573 dimer interface [polypeptide binding]; other site 167879001574 phosphorylation site [posttranslational modification] 167879001575 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 167879001576 ATP binding site [chemical binding]; other site 167879001577 Mg2+ binding site [ion binding]; other site 167879001578 G-X-G motif; other site 167879001579 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 167879001580 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 167879001581 active site 167879001582 phosphorylation site [posttranslational modification] 167879001583 intermolecular recognition site; other site 167879001584 dimerization interface [polypeptide binding]; other site 167879001585 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 167879001586 DNA binding site [nucleotide binding] 167879001587 Spondin_N; Region: Spond_N; pfam06468 167879001588 Spondin_N; Region: Spond_N; pfam06468 167879001589 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 167879001590 Phosphotransferase enzyme family; Region: APH; pfam01636 167879001591 active site 167879001592 substrate binding site [chemical binding]; other site 167879001593 ATP binding site [chemical binding]; other site 167879001594 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 167879001595 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 167879001596 substrate binding site [chemical binding]; other site 167879001597 oxyanion hole (OAH) forming residues; other site 167879001598 trimer interface [polypeptide binding]; other site 167879001599 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 167879001600 enoyl-CoA hydratase; Provisional; Region: PRK09076 167879001601 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 167879001602 substrate binding site [chemical binding]; other site 167879001603 oxyanion hole (OAH) forming residues; other site 167879001604 trimer interface [polypeptide binding]; other site 167879001605 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 167879001606 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 167879001607 active site 167879001608 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 167879001609 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 167879001610 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 167879001611 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 167879001612 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 167879001613 Sulfatase; Region: Sulfatase; pfam00884 167879001614 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 167879001615 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 167879001616 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 167879001617 acyl-activating enzyme (AAE) consensus motif; other site 167879001618 acyl-activating enzyme (AAE) consensus motif; other site 167879001619 putative AMP binding site [chemical binding]; other site 167879001620 putative active site [active] 167879001621 putative CoA binding site [chemical binding]; other site 167879001622 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 167879001623 Helix-turn-helix domain; Region: HTH_18; pfam12833 167879001624 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 167879001625 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 167879001626 active site 167879001627 catalytic site [active] 167879001628 SAV4209_like. Similar in sequence to the Streptomyces avermitilis SAV4209 protein, with a hot dog fold that is similar to those of (R)-specific enoyl-CoA hydratase, the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid...; Region: SAV4209_like; cd03453 167879001629 active site 167879001630 catalytic site [active] 167879001631 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 167879001632 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 167879001633 NAD(P) binding site [chemical binding]; other site 167879001634 active site 167879001635 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 167879001636 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 167879001637 active site 167879001638 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 167879001639 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 167879001640 N-terminal plug; other site 167879001641 ligand-binding site [chemical binding]; other site 167879001642 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 167879001643 CoA-transferase family III; Region: CoA_transf_3; pfam02515 167879001644 lipid-transfer protein; Provisional; Region: PRK08256 167879001645 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 167879001646 active site 167879001647 choline dehydrogenase; Validated; Region: PRK02106 167879001648 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 167879001649 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 167879001650 putative active site [active] 167879001651 putative catalytic site [active] 167879001652 enoyl-CoA hydratase; Provisional; Region: PRK06688 167879001653 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 167879001654 substrate binding site [chemical binding]; other site 167879001655 oxyanion hole (OAH) forming residues; other site 167879001656 trimer interface [polypeptide binding]; other site 167879001657 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 167879001658 PAS domain S-box; Region: sensory_box; TIGR00229 167879001659 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; cd00130 167879001660 putative active site [active] 167879001661 heme pocket [chemical binding]; other site 167879001662 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879001663 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879001664 metal binding site [ion binding]; metal-binding site 167879001665 active site 167879001666 I-site; other site 167879001667 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 167879001668 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 167879001669 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 167879001670 acyl-activating enzyme (AAE) consensus motif; other site 167879001671 AMP binding site [chemical binding]; other site 167879001672 active site 167879001673 CoA binding site [chemical binding]; other site 167879001674 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 167879001675 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 167879001676 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 167879001677 Coenzyme A binding pocket [chemical binding]; other site 167879001678 Protein of unknown function (DUF938); Region: DUF938; pfam06080 167879001679 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 167879001680 Protein of unknown function, DUF482; Region: DUF482; pfam04339 167879001681 HAMP domain; Region: HAMP; pfam00672 167879001682 dimerization interface [polypeptide binding]; other site 167879001683 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 167879001684 dimer interface [polypeptide binding]; other site 167879001685 phosphorylation site [posttranslational modification] 167879001686 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 167879001687 ATP binding site [chemical binding]; other site 167879001688 Mg2+ binding site [ion binding]; other site 167879001689 G-X-G motif; other site 167879001690 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 167879001691 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 167879001692 active site 167879001693 phosphorylation site [posttranslational modification] 167879001694 intermolecular recognition site; other site 167879001695 dimerization interface [polypeptide binding]; other site 167879001696 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 167879001697 DNA binding site [nucleotide binding] 167879001698 Protein of unknown function (DUF3019); Region: DUF3019; pfam11456 167879001699 MltA-interacting protein MipA; Region: MipA; cl01504 167879001700 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 167879001701 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 167879001702 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 167879001703 substrate binding pocket [chemical binding]; other site 167879001704 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 167879001705 membrane-bound complex binding site; other site 167879001706 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 167879001707 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879001708 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879001709 metal binding site [ion binding]; metal-binding site 167879001710 active site 167879001711 I-site; other site 167879001712 Predicted methyltransferase [General function prediction only]; Region: COG4798 167879001713 Methyltransferase domain; Region: Methyltransf_31; pfam13847 167879001714 S-adenosylmethionine binding site [chemical binding]; other site 167879001715 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 167879001716 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 167879001717 dimer interface [polypeptide binding]; other site 167879001718 PYR/PP interface [polypeptide binding]; other site 167879001719 TPP binding site [chemical binding]; other site 167879001720 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 167879001721 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 167879001722 TPP-binding site [chemical binding]; other site 167879001723 AAA domain; Region: AAA_17; pfam13207 167879001724 AAA domain; Region: AAA_18; pfam13238 167879001725 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 167879001726 Peptidase S46; Region: Peptidase_S46; pfam10459 167879001727 Imelysin; Region: Peptidase_M75; pfam09375 167879001728 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 167879001729 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 167879001730 arginine repressor; Provisional; Region: PRK05066 167879001731 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 167879001732 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 167879001733 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 167879001734 Hemerythrin-like domain; Region: Hr-like; cd12108 167879001735 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 167879001736 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 167879001737 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 167879001738 Uncharacterized protein family (UPF0231); Region: UPF0231; pfam06062 167879001739 HDOD domain; Region: HDOD; pfam08668 167879001740 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 167879001741 muropeptide transporter; Reviewed; Region: ampG; PRK11902 167879001742 putative substrate translocation pore; other site 167879001743 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 167879001744 active site 167879001745 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG3056 167879001746 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 167879001747 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 167879001748 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 167879001749 S-adenosylmethionine binding site [chemical binding]; other site 167879001750 BolA-like protein; Region: BolA; cl00386 167879001751 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 167879001752 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 167879001753 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 167879001754 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 167879001755 PilZ domain; Region: PilZ; pfam07238 167879001756 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 167879001757 transcription termination factor Rho; Provisional; Region: PRK12608 167879001758 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 167879001759 Walker A motif; other site 167879001760 ATP binding site [chemical binding]; other site 167879001761 Walker B motif; other site 167879001762 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 167879001763 DNA-binding site [nucleotide binding]; DNA binding site 167879001764 RNA-binding motif; other site 167879001765 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 167879001766 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 167879001767 Haemolysin-III related; Region: HlyIII; cl03831 167879001768 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 167879001769 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 167879001770 Ca2+ binding site [ion binding]; other site 167879001771 EF-hand domain pair; Region: EF_hand_6; pfam13833 167879001772 TAP-like protein; Region: Abhydrolase_4; pfam08386 167879001773 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 167879001774 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 167879001775 ATP-binding cassette domain of the Na+ transporter; Region: ABC_NatA_sodium_exporter; cd03266 167879001776 Walker A/P-loop; other site 167879001777 ATP binding site [chemical binding]; other site 167879001778 Q-loop/lid; other site 167879001779 ABC transporter signature motif; other site 167879001780 Walker B; other site 167879001781 D-loop; other site 167879001782 H-loop/switch region; other site 167879001783 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 167879001784 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 167879001785 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 167879001786 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 167879001787 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 167879001788 DNA binding residues [nucleotide binding] 167879001789 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 167879001790 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 167879001791 dimer interface [polypeptide binding]; other site 167879001792 active site 167879001793 glycine-pyridoxal phosphate binding site [chemical binding]; other site 167879001794 folate binding site [chemical binding]; other site 167879001795 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 167879001796 ATP cone domain; Region: ATP-cone; pfam03477 167879001797 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 167879001798 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 167879001799 catalytic motif [active] 167879001800 Zn binding site [ion binding]; other site 167879001801 RibD C-terminal domain; Region: RibD_C; cl17279 167879001802 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 167879001803 Lumazine binding domain; Region: Lum_binding; pfam00677 167879001804 Lumazine binding domain; Region: Lum_binding; pfam00677 167879001805 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 167879001806 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 167879001807 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 167879001808 dimerization interface [polypeptide binding]; other site 167879001809 active site 167879001810 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cl00237 167879001811 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 167879001812 DNA-binding site [nucleotide binding]; DNA binding site 167879001813 RNA-binding motif; other site 167879001814 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 167879001815 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 167879001816 HIGH motif; other site 167879001817 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 167879001818 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 167879001819 active site 167879001820 KMSKS motif; other site 167879001821 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 167879001822 tRNA binding surface [nucleotide binding]; other site 167879001823 anticodon binding site; other site 167879001824 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 167879001825 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 167879001826 multifunctional aminopeptidase A; Provisional; Region: PRK00913 167879001827 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 167879001828 interface (dimer of trimers) [polypeptide binding]; other site 167879001829 Substrate-binding/catalytic site; other site 167879001830 Zn-binding sites [ion binding]; other site 167879001831 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 167879001832 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 167879001833 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 167879001834 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 167879001835 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 167879001836 RDD family; Region: RDD; pfam06271 167879001837 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 167879001838 Protein export membrane protein; Region: SecD_SecF; cl14618 167879001839 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 167879001840 HlyD family secretion protein; Region: HlyD_3; pfam13437 167879001841 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 167879001842 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 167879001843 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 167879001844 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 167879001845 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 167879001846 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 167879001847 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 167879001848 active site 167879001849 catalytic residues [active] 167879001850 PA_VapT_like: Protease-associated domain containing proteins like VapT from Vibrio metschnikovii strain RH530. This group contains various PA domain-containing proteins similar to V. metschnikovii VapT, including the serine alkaline protease SapSh from...; Region: PA_VapT_like; cd04817 167879001851 PA/subtilisin-like domain interface [polypeptide binding]; other site 167879001852 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 167879001853 catalytic residues [active] 167879001854 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 167879001855 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 167879001856 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 167879001857 active site 167879001858 catalytic residues [active] 167879001859 PA_VapT_like: Protease-associated domain containing proteins like VapT from Vibrio metschnikovii strain RH530. This group contains various PA domain-containing proteins similar to V. metschnikovii VapT, including the serine alkaline protease SapSh from...; Region: PA_VapT_like; cd04817 167879001860 PA/subtilisin-like domain interface [polypeptide binding]; other site 167879001861 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 167879001862 catalytic residues [active] 167879001863 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 167879001864 Peptidase S8 family domain, uncharacterized subfamily 1; Region: Peptidases_S8_1; cd07487 167879001865 active site 167879001866 catalytic triad [active] 167879001867 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 167879001868 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 167879001869 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879001870 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879001871 metal binding site [ion binding]; metal-binding site 167879001872 active site 167879001873 I-site; other site 167879001874 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 167879001875 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; cd00130 167879001876 putative active site [active] 167879001877 heme pocket [chemical binding]; other site 167879001878 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 167879001879 dimer interface [polypeptide binding]; other site 167879001880 phosphorylation site [posttranslational modification] 167879001881 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 167879001882 ATP binding site [chemical binding]; other site 167879001883 Mg2+ binding site [ion binding]; other site 167879001884 G-X-G motif; other site 167879001885 Response regulator receiver domain; Region: Response_reg; pfam00072 167879001886 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 167879001887 active site 167879001888 phosphorylation site [posttranslational modification] 167879001889 intermolecular recognition site; other site 167879001890 dimerization interface [polypeptide binding]; other site 167879001891 Helix-turn-helix domain; Region: HTH_18; pfam12833 167879001892 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 167879001893 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 167879001894 active site 167879001895 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 167879001896 Predicted membrane protein [Function unknown]; Region: COG2860 167879001897 UPF0126 domain; Region: UPF0126; pfam03458 167879001898 UPF0126 domain; Region: UPF0126; pfam03458 167879001899 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 167879001900 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 167879001901 active site 167879001902 dimer interface [polypeptide binding]; other site 167879001903 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 167879001904 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 167879001905 active site 167879001906 FMN binding site [chemical binding]; other site 167879001907 substrate binding site [chemical binding]; other site 167879001908 3Fe-4S cluster binding site [ion binding]; other site 167879001909 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 167879001910 domain interface; other site 167879001911 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 167879001912 Nitrate and nitrite sensing; Region: NIT; pfam08376 167879001913 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 167879001914 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 167879001915 dimer interface [polypeptide binding]; other site 167879001916 putative CheW interface [polypeptide binding]; other site 167879001917 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 167879001918 TIR domain; Region: TIR_2; pfam13676 167879001919 Membrane transport protein; Region: Mem_trans; cl09117 167879001920 selenophosphate synthetase; Provisional; Region: PRK00943 167879001921 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 167879001922 dimerization interface [polypeptide binding]; other site 167879001923 putative ATP binding site [chemical binding]; other site 167879001924 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 167879001925 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 167879001926 active site residue [active] 167879001927 Transcriptional regulator [Transcription]; Region: LysR; COG0583 167879001928 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879001929 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 167879001930 putative effector binding pocket; other site 167879001931 dimerization interface [polypeptide binding]; other site 167879001932 Isochorismatase family; Region: Isochorismatase; pfam00857 167879001933 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 167879001934 catalytic triad [active] 167879001935 conserved cis-peptide bond; other site 167879001936 Transcription factor zinc-finger; Region: zf-TFIIB; pfam13453 167879001937 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 167879001938 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 167879001939 HlyD family secretion protein; Region: HlyD_3; pfam13437 167879001940 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 167879001941 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 167879001942 Walker A/P-loop; other site 167879001943 ATP binding site [chemical binding]; other site 167879001944 Q-loop/lid; other site 167879001945 ABC transporter signature motif; other site 167879001946 Walker B; other site 167879001947 D-loop; other site 167879001948 H-loop/switch region; other site 167879001949 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 167879001950 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 167879001951 FtsX-like permease family; Region: FtsX; pfam02687 167879001952 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 167879001953 FtsX-like permease family; Region: FtsX; pfam02687 167879001954 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 167879001955 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 167879001956 active site 167879001957 phosphorylation site [posttranslational modification] 167879001958 intermolecular recognition site; other site 167879001959 dimerization interface [polypeptide binding]; other site 167879001960 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 167879001961 Walker A motif; other site 167879001962 ATP binding site [chemical binding]; other site 167879001963 Walker B motif; other site 167879001964 arginine finger; other site 167879001965 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 167879001966 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 167879001967 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 167879001968 ATP binding site [chemical binding]; other site 167879001969 Mg2+ binding site [ion binding]; other site 167879001970 G-X-G motif; other site 167879001971 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 167879001972 active site 167879001973 catalytic site [active] 167879001974 substrate binding site [chemical binding]; other site 167879001975 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 167879001976 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 167879001977 binding surface 167879001978 TPR motif; other site 167879001979 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 167879001980 TPR motif; other site 167879001981 binding surface 167879001982 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 167879001983 binding surface 167879001984 TPR motif; other site 167879001985 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 167879001986 binding surface 167879001987 TPR motif; other site 167879001988 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 167879001989 TPR motif; other site 167879001990 binding surface 167879001991 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 167879001992 binding surface 167879001993 TPR motif; other site 167879001994 PEP-CTERM protein-sorting domain; Region: PEP_exosort; TIGR02595 167879001995 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 167879001996 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 167879001997 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_2; cd06160 167879001998 Peptidase family M50; Region: Peptidase_M50; pfam02163 167879001999 active site 167879002000 putative substrate binding region [chemical binding]; other site 167879002001 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 167879002002 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 167879002003 type VII secretion-associated serine protease mycosin; Region: T7SS_mycosin; TIGR03921 167879002004 Peptidase S8 family domain, uncharacterized subfamily 15; Region: Peptidases_S8_15; cd07498 167879002005 active site 167879002006 catalytic triad [active] 167879002007 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 167879002008 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 167879002009 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 167879002010 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 167879002011 DNA binding residues [nucleotide binding] 167879002012 Putative zinc-finger; Region: zf-HC2; pfam13490 167879002013 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 167879002014 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 167879002015 putative acyl-acceptor binding pocket; other site 167879002016 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 167879002017 Transcriptional regulator [Transcription]; Region: LysR; COG0583 167879002018 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879002019 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 167879002020 dimerization interface [polypeptide binding]; other site 167879002021 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 167879002022 NADH(P)-binding; Region: NAD_binding_10; pfam13460 167879002023 NAD(P) binding site [chemical binding]; other site 167879002024 active site 167879002025 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 167879002026 Transcriptional regulator [Transcription]; Region: LysR; COG0583 167879002027 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879002028 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_2; cd08471 167879002029 putative effector binding pocket; other site 167879002030 putative dimerization interface [polypeptide binding]; other site 167879002031 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 167879002032 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 167879002033 conserved cys residue [active] 167879002034 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_6; cd07242 167879002035 putative dimer interface [polypeptide binding]; other site 167879002036 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 167879002037 ligand binding site [chemical binding]; other site 167879002038 Zn binding site [ion binding]; other site 167879002039 MarR family; Region: MarR_2; cl17246 167879002040 Transcriptional regulators [Transcription]; Region: MarR; COG1846 167879002041 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 167879002042 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 167879002043 C-terminal domain interface [polypeptide binding]; other site 167879002044 GSH binding site (G-site) [chemical binding]; other site 167879002045 dimer interface [polypeptide binding]; other site 167879002046 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 167879002047 N-terminal domain interface [polypeptide binding]; other site 167879002048 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 167879002049 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 167879002050 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 167879002051 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 167879002052 Predicted membrane protein [Function unknown]; Region: COG2259 167879002053 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 167879002054 hypothetical protein; Provisional; Region: PRK05409 167879002055 Predicted integral membrane protein (DUF2282); Region: DUF2282; pfam10048 167879002056 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 167879002057 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 167879002058 catalytic residues [active] 167879002059 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 167879002060 Cupin; Region: Cupin_6; pfam12852 167879002061 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 167879002062 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 167879002063 LysR family transcriptional regulator; Provisional; Region: PRK14997 167879002064 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879002065 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 167879002066 dimerization interface [polypeptide binding]; other site 167879002067 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 167879002068 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 167879002069 substrate binding site [chemical binding]; other site 167879002070 catalytic Zn binding site [ion binding]; other site 167879002071 NAD binding site [chemical binding]; other site 167879002072 structural Zn binding site [ion binding]; other site 167879002073 dimer interface [polypeptide binding]; other site 167879002074 S-formylglutathione hydrolase; Region: PLN02442 167879002075 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 167879002076 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879002077 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879002078 metal binding site [ion binding]; metal-binding site 167879002079 active site 167879002080 I-site; other site 167879002081 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 167879002082 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 167879002083 Predicted transcriptional regulators [Transcription]; Region: COG1733 167879002084 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 167879002085 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 167879002086 classical (c) SDRs; Region: SDR_c; cd05233 167879002087 NAD(P) binding site [chemical binding]; other site 167879002088 active site 167879002089 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 167879002090 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 167879002091 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 167879002092 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 167879002093 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 167879002094 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 167879002095 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 167879002096 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 167879002097 GSH binding site [chemical binding]; other site 167879002098 catalytic residues [active] 167879002099 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 167879002100 Transcriptional regulator [Transcription]; Region: LysR; COG0583 167879002101 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879002102 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 167879002103 putative effector binding pocket; other site 167879002104 dimerization interface [polypeptide binding]; other site 167879002105 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; pfam09982 167879002106 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 167879002107 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 167879002108 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 167879002109 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 167879002110 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 167879002111 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 167879002112 catalytic residue [active] 167879002113 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 167879002114 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 167879002115 active site residue [active] 167879002116 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 167879002117 Sodium Bile acid symporter family; Region: SBF; cl17470 167879002118 transcriptional regulator EutR; Provisional; Region: PRK10130 167879002119 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 167879002120 Sulfatase; Region: Sulfatase; pfam00884 167879002121 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 167879002122 Predicted integral membrane protein (DUF2282); Region: DUF2282; pfam10048 167879002123 hypothetical protein; Provisional; Region: PRK05409 167879002124 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 167879002125 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 167879002126 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 167879002127 heme-binding site [chemical binding]; other site 167879002128 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 167879002129 FAD binding pocket [chemical binding]; other site 167879002130 FAD binding motif [chemical binding]; other site 167879002131 phosphate binding motif [ion binding]; other site 167879002132 beta-alpha-beta structure motif; other site 167879002133 NAD binding pocket [chemical binding]; other site 167879002134 Heme binding pocket [chemical binding]; other site 167879002135 NnrS protein; Region: NnrS; pfam05940 167879002136 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 167879002137 GAF domain; Region: GAF; pfam01590 167879002138 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 167879002139 Walker A motif; other site 167879002140 ATP binding site [chemical binding]; other site 167879002141 Walker B motif; other site 167879002142 arginine finger; other site 167879002143 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 167879002144 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879002145 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 167879002146 dimerization interface [polypeptide binding]; other site 167879002147 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 167879002148 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like6; cd05664 167879002149 metal binding site [ion binding]; metal-binding site 167879002150 putative dimer interface [polypeptide binding]; other site 167879002151 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 167879002152 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 167879002153 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 167879002154 FeS/SAM binding site; other site 167879002155 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 167879002156 pyrroloquinoline quinone biosynthesis protein PqqD; Provisional; Region: PRK02079 167879002157 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 167879002158 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 167879002159 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 167879002160 coenzyme PQQ synthesis protein PqqA; Provisional; Region: pqqA; PRK00284 167879002161 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 167879002162 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 167879002163 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 167879002164 23S rRNA interface [nucleotide binding]; other site 167879002165 putative translocon interaction site; other site 167879002166 signal recognition particle (SRP54) interaction site; other site 167879002167 L23 interface [polypeptide binding]; other site 167879002168 trigger factor interaction site; other site 167879002169 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 167879002170 23S rRNA interface [nucleotide binding]; other site 167879002171 5S rRNA interface [nucleotide binding]; other site 167879002172 putative antibiotic binding site [chemical binding]; other site 167879002173 L25 interface [polypeptide binding]; other site 167879002174 L27 interface [polypeptide binding]; other site 167879002175 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 167879002176 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 167879002177 G-X-X-G motif; other site 167879002178 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 167879002179 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 167879002180 putative translocon binding site; other site 167879002181 protein-rRNA interface [nucleotide binding]; other site 167879002182 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 167879002183 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 167879002184 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 167879002185 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 167879002186 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 167879002187 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 167879002188 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 167879002189 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 167879002190 elongation factor G; Reviewed; Region: PRK00007 167879002191 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 167879002192 G1 box; other site 167879002193 putative GEF interaction site [polypeptide binding]; other site 167879002194 GTP/Mg2+ binding site [chemical binding]; other site 167879002195 Switch I region; other site 167879002196 G2 box; other site 167879002197 G3 box; other site 167879002198 Switch II region; other site 167879002199 G4 box; other site 167879002200 G5 box; other site 167879002201 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 167879002202 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cl02789 167879002203 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 167879002204 putative assembly protein; Region: PHA00350 167879002205 Zonular occludens toxin (Zot); Region: Zot; cl17485 167879002206 hypothetical protein; Region: PHA01159 167879002207 Replication initiation factor; Region: Rep_trans; pfam02486 167879002208 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 167879002209 putative transposase OrfB; Reviewed; Region: PHA02517 167879002210 HTH-like domain; Region: HTH_21; pfam13276 167879002211 Integrase core domain; Region: rve; pfam00665 167879002212 Integrase core domain; Region: rve_3; pfam13683 167879002213 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 167879002214 Transposase; Region: HTH_Tnp_1; pfam01527 167879002215 Hypothetical protein (DUF2513); Region: DUF2513; pfam10711 167879002216 integrase; Provisional; Region: int; PHA02601 167879002217 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 167879002218 active site 167879002219 DNA binding site [nucleotide binding] 167879002220 Int/Topo IB signature motif; other site 167879002221 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 167879002222 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 167879002223 Coenzyme A binding pocket [chemical binding]; other site 167879002224 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 167879002225 SnoaL-like domain; Region: SnoaL_3; pfam13474 167879002226 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 167879002227 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 167879002228 putative NAD(P) binding site [chemical binding]; other site 167879002229 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 167879002230 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 167879002231 FMN binding site [chemical binding]; other site 167879002232 active site 167879002233 catalytic residues [active] 167879002234 substrate binding site [chemical binding]; other site 167879002235 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 167879002236 active sites [active] 167879002237 tetramer interface [polypeptide binding]; other site 167879002238 urocanate hydratase; Provisional; Region: PRK05414 167879002239 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 167879002240 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 167879002241 DNA-binding site [nucleotide binding]; DNA binding site 167879002242 UTRA domain; Region: UTRA; pfam07702 167879002243 imidazolonepropionase; Validated; Region: PRK09356 167879002244 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 167879002245 active site 167879002246 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 167879002247 dimerization interface [polypeptide binding]; other site 167879002248 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879002249 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879002250 metal binding site [ion binding]; metal-binding site 167879002251 active site 167879002252 I-site; other site 167879002253 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 167879002254 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 167879002255 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 167879002256 active site 167879002257 catalytic site [active] 167879002258 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 167879002259 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 167879002260 RNA binding surface [nucleotide binding]; other site 167879002261 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 167879002262 probable active site [active] 167879002263 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 167879002264 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 167879002265 acyl-activating enzyme (AAE) consensus motif; other site 167879002266 AMP binding site [chemical binding]; other site 167879002267 active site 167879002268 CoA binding site [chemical binding]; other site 167879002269 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 167879002270 salt bridge; other site 167879002271 non-specific DNA binding site [nucleotide binding]; other site 167879002272 sequence-specific DNA binding site [nucleotide binding]; other site 167879002273 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 167879002274 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 167879002275 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 167879002276 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 167879002277 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 167879002278 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 167879002279 Major Facilitator Superfamily; Region: MFS_1; pfam07690 167879002280 putative substrate translocation pore; other site 167879002281 Dodecin; Region: Dodecin; pfam07311 167879002282 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 167879002283 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 167879002284 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 167879002285 active site 167879002286 FMN binding site [chemical binding]; other site 167879002287 2,4-decadienoyl-CoA binding site; other site 167879002288 catalytic residue [active] 167879002289 4Fe-4S cluster binding site [ion binding]; other site 167879002290 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 167879002291 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 167879002292 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 167879002293 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 167879002294 domain interface [polypeptide binding]; other site 167879002295 putative active site [active] 167879002296 catalytic site [active] 167879002297 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 167879002298 domain interface [polypeptide binding]; other site 167879002299 putative active site [active] 167879002300 catalytic site [active] 167879002301 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 167879002302 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 167879002303 active site 167879002304 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 167879002305 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 167879002306 dimer interface [polypeptide binding]; other site 167879002307 ssDNA binding site [nucleotide binding]; other site 167879002308 tetramer (dimer of dimers) interface [polypeptide binding]; other site 167879002309 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 167879002310 Prostaglandin dehydrogenases; Region: PGDH; cd05288 167879002311 NAD(P) binding site [chemical binding]; other site 167879002312 substrate binding site [chemical binding]; other site 167879002313 dimer interface [polypeptide binding]; other site 167879002314 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 167879002315 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 167879002316 potential catalytic triad [active] 167879002317 conserved cys residue [active] 167879002318 Transcriptional regulator [Transcription]; Region: LysR; COG0583 167879002319 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879002320 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 167879002321 putative effector binding pocket; other site 167879002322 dimerization interface [polypeptide binding]; other site 167879002323 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 167879002324 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 167879002325 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 167879002326 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 167879002327 N-terminal plug; other site 167879002328 ligand-binding site [chemical binding]; other site 167879002329 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 167879002330 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 167879002331 active site 167879002332 phosphorylation site [posttranslational modification] 167879002333 intermolecular recognition site; other site 167879002334 dimerization interface [polypeptide binding]; other site 167879002335 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 167879002336 DNA binding residues [nucleotide binding] 167879002337 dimerization interface [polypeptide binding]; other site 167879002338 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 167879002339 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 167879002340 Na binding site [ion binding]; other site 167879002341 PAS domain; Region: PAS; smart00091 167879002342 PAS fold; Region: PAS_7; pfam12860 167879002343 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 167879002344 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 167879002345 dimer interface [polypeptide binding]; other site 167879002346 phosphorylation site [posttranslational modification] 167879002347 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 167879002348 ATP binding site [chemical binding]; other site 167879002349 Mg2+ binding site [ion binding]; other site 167879002350 G-X-G motif; other site 167879002351 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 167879002352 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 167879002353 active site 167879002354 phosphorylation site [posttranslational modification] 167879002355 intermolecular recognition site; other site 167879002356 dimerization interface [polypeptide binding]; other site 167879002357 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 167879002358 Major Facilitator Superfamily; Region: MFS_1; pfam07690 167879002359 putative substrate translocation pore; other site 167879002360 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 167879002361 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 167879002362 LEA14-like dessication related protein [Defense mechanisms]; Region: COG5608 167879002363 Late embryogenesis abundant protein; Region: LEA_2; pfam03168 167879002364 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 167879002365 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 167879002366 NAD(P) binding site [chemical binding]; other site 167879002367 active site 167879002368 Oxidoreductase-like protein, N-terminal; Region: Oxidored-like; pfam09791 167879002369 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 167879002370 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 167879002371 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 167879002372 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 167879002373 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 167879002374 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 167879002375 carboxyltransferase (CT) interaction site; other site 167879002376 biotinylation site [posttranslational modification]; other site 167879002377 Dehydroquinase class II; Region: DHquinase_II; pfam01220 167879002378 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 167879002379 trimer interface [polypeptide binding]; other site 167879002380 active site 167879002381 dimer interface [polypeptide binding]; other site 167879002382 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 167879002383 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879002384 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879002385 metal binding site [ion binding]; metal-binding site 167879002386 active site 167879002387 I-site; other site 167879002388 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 167879002389 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 167879002390 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 167879002391 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 167879002392 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 167879002393 DsbD alpha interface [polypeptide binding]; other site 167879002394 catalytic residues [active] 167879002395 CutA1 divalent ion tolerance protein; Region: CutA1; pfam03091 167879002396 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 167879002397 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 167879002398 oligomerisation interface [polypeptide binding]; other site 167879002399 mobile loop; other site 167879002400 roof hairpin; other site 167879002401 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 167879002402 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 167879002403 ring oligomerisation interface [polypeptide binding]; other site 167879002404 ATP/Mg binding site [chemical binding]; other site 167879002405 stacking interactions; other site 167879002406 hinge regions; other site 167879002407 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 167879002408 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 167879002409 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 167879002410 ligand binding site [chemical binding]; other site 167879002411 Conserved TM helix; Region: TM_helix; pfam05552 167879002412 Mechanosensitive ion channel; Region: MS_channel; pfam00924 167879002413 RNA polymerase sigma factor SigX; Reviewed; Region: PRK09640 167879002414 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 167879002415 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 167879002416 DNA binding residues [nucleotide binding] 167879002417 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 167879002418 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 167879002419 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 167879002420 ligand binding site [chemical binding]; other site 167879002421 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 167879002422 Protein of unknown function (DUF3016); Region: DUF3016; pfam11454 167879002423 Mechanosensitive ion channel; Region: MS_channel; pfam00924 167879002424 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 167879002425 Radical SAM superfamily; Region: Radical_SAM; pfam04055 167879002426 FeS/SAM binding site; other site 167879002427 elongation factor P; Validated; Region: PRK00529 167879002428 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 167879002429 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 167879002430 RNA binding site [nucleotide binding]; other site 167879002431 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 167879002432 RNA binding site [nucleotide binding]; other site 167879002433 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 167879002434 Transcriptional regulators [Transcription]; Region: PurR; COG1609 167879002435 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 167879002436 DNA binding site [nucleotide binding] 167879002437 domain linker motif; other site 167879002438 Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators; Region: PBP1_CelR; cd06295 167879002439 putative dimerization interface [polypeptide binding]; other site 167879002440 putative ligand binding site [chemical binding]; other site 167879002441 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 167879002442 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 167879002443 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 167879002444 glucokinase; Provisional; Region: glk; PRK00292 167879002445 glucokinase, proteobacterial type; Region: glk; TIGR00749 167879002446 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 167879002447 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 167879002448 Transcriptional regulators [Transcription]; Region: PurR; COG1609 167879002449 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 167879002450 DNA binding site [nucleotide binding] 167879002451 domain linker motif; other site 167879002452 Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators; Region: PBP1_CelR; cd06295 167879002453 putative dimerization interface [polypeptide binding]; other site 167879002454 putative ligand binding site [chemical binding]; other site 167879002455 beta-phosphoglucomutase; Region: bPGM; TIGR01990 167879002456 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 167879002457 motif II; other site 167879002458 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 167879002459 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 167879002460 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 167879002461 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 167879002462 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 167879002463 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 167879002464 putative substrate translocation pore; other site 167879002465 glucokinase; Provisional; Region: glk; PRK00292 167879002466 glucokinase, proteobacterial type; Region: glk; TIGR00749 167879002467 alpha-glucosidase; Provisional; Region: PRK10426 167879002468 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 167879002469 CtsZ (cyclic tetrasaccharide-synthesizing enzyme Z) is a bacterial 6-alpha-glucosyltransferase, first identified in Arthrobacter globiformis, that produces cyclic tetrasaccharides together with a closely related enzyme CtsY. CtsZ and CtsY both have a...; Region: GH31_transferase_CtsZ; cd06598 167879002470 putative active site [active] 167879002471 putative catalytic site [active] 167879002472 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 167879002473 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 167879002474 active site 167879002475 catalytic site [active] 167879002476 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_2; cd11339 167879002477 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 167879002478 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_2; cd11339 167879002479 active site 167879002480 catalytic site [active] 167879002481 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 167879002482 putative substrate translocation pore; other site 167879002483 putative MFS family transporter protein; Provisional; Region: PRK03633 167879002484 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 167879002485 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 167879002486 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 167879002487 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 167879002488 NAD(P) binding site [chemical binding]; other site 167879002489 catalytic residues [active] 167879002490 Methyltransferase domain; Region: Methyltransf_18; pfam12847 167879002491 S-adenosylmethionine binding site [chemical binding]; other site 167879002492 Transcriptional regulator [Transcription]; Region: LysR; COG0583 167879002493 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879002494 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 167879002495 putative effector binding pocket; other site 167879002496 dimerization interface [polypeptide binding]; other site 167879002497 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 167879002498 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 167879002499 putative NAD(P) binding site [chemical binding]; other site 167879002500 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 167879002501 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 167879002502 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 167879002503 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 167879002504 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 167879002505 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 167879002506 catalytic residues [active] 167879002507 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 167879002508 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879002509 Transcriptional regulator [Transcription]; Region: LysR; COG0583 167879002510 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 167879002511 putative effector binding pocket; other site 167879002512 dimerization interface [polypeptide binding]; other site 167879002513 alpha-1,6-glucosidases, pullulanase-type; Region: pullul_strch; TIGR02103 167879002514 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 167879002515 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 167879002516 Ca binding site [ion binding]; other site 167879002517 active site 167879002518 catalytic site [active] 167879002519 Domain of unknown function (DUF3372); Region: DUF3372; pfam11852 167879002520 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 167879002521 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 167879002522 putative acyl-acceptor binding pocket; other site 167879002523 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 167879002524 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 167879002525 phosphopeptide binding site; other site 167879002526 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 167879002527 Catalytic domain of Protein Kinases; Region: PKc; cd00180 167879002528 active site 167879002529 ATP binding site [chemical binding]; other site 167879002530 substrate binding site [chemical binding]; other site 167879002531 activation loop (A-loop); other site 167879002532 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 167879002533 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 167879002534 binding surface 167879002535 TPR motif; other site 167879002536 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 167879002537 TPR motif; other site 167879002538 binding surface 167879002539 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 167879002540 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 167879002541 Walker A/P-loop; other site 167879002542 ATP binding site [chemical binding]; other site 167879002543 Q-loop/lid; other site 167879002544 ABC transporter signature motif; other site 167879002545 Walker B; other site 167879002546 D-loop; other site 167879002547 H-loop/switch region; other site 167879002548 inner membrane transport permease; Provisional; Region: PRK15066 167879002549 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 167879002550 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 167879002551 S-adenosylmethionine binding site [chemical binding]; other site 167879002552 putative pyridoxal-dependent aspartate 1-decarboxylase; Region: NOD_PanD_pyr; TIGR03799 167879002553 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 167879002554 catalytic residue [active] 167879002555 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 167879002556 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 167879002557 active site 167879002558 trimer interface [polypeptide binding]; other site 167879002559 allosteric site; other site 167879002560 active site lid [active] 167879002561 hexamer (dimer of trimers) interface [polypeptide binding]; other site 167879002562 HDOD domain; Region: HDOD; pfam08668 167879002563 GAF domain; Region: GAF; pfam01590 167879002564 YcxB-like protein; Region: YcxB; pfam14317 167879002565 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 167879002566 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 167879002567 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 167879002568 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 167879002569 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 167879002570 putative PBP binding loops; other site 167879002571 dimer interface [polypeptide binding]; other site 167879002572 ABC-ATPase subunit interface; other site 167879002573 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 167879002574 dimer interface [polypeptide binding]; other site 167879002575 conserved gate region; other site 167879002576 putative PBP binding loops; other site 167879002577 ABC-ATPase subunit interface; other site 167879002578 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 167879002579 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 167879002580 Walker A/P-loop; other site 167879002581 ATP binding site [chemical binding]; other site 167879002582 Q-loop/lid; other site 167879002583 ABC transporter signature motif; other site 167879002584 Walker B; other site 167879002585 D-loop; other site 167879002586 H-loop/switch region; other site 167879002587 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 167879002588 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 167879002589 active site 167879002590 phosphorylation site [posttranslational modification] 167879002591 intermolecular recognition site; other site 167879002592 dimerization interface [polypeptide binding]; other site 167879002593 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 167879002594 DNA binding site [nucleotide binding] 167879002595 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 167879002596 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 167879002597 putative acyl-acceptor binding pocket; other site 167879002598 RNase E inhibitor protein; Provisional; Region: PRK11191 167879002599 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 167879002600 Transcriptional regulators [Transcription]; Region: PurR; COG1609 167879002601 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 167879002602 DNA binding site [nucleotide binding] 167879002603 domain linker motif; other site 167879002604 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 167879002605 putative dimerization interface [polypeptide binding]; other site 167879002606 putative ligand binding site [chemical binding]; other site 167879002607 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 167879002608 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 167879002609 active site 167879002610 dimer interface [polypeptide binding]; other site 167879002611 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 167879002612 dimer interface [polypeptide binding]; other site 167879002613 active site 167879002614 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 167879002615 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 167879002616 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 167879002617 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 167879002618 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 167879002619 SapC; Region: SapC; pfam07277 167879002620 Putative carbohydrate binding domain; Region: CHB_HEX; smart01081 167879002621 N-acetyl-beta-hexosaminidase [Carbohydrate transport and metabolism]; Region: Chb; COG3525 167879002622 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 167879002623 Beta-N-acetylhexosaminidases of glycosyl hydrolase family 20 (GH20) catalyze the removal of beta-1,4-linked N-acetyl-D-hexosamine residues from the non-reducing ends of N-acetyl-beta-D-hexosaminides including N-acetylglucosides and N-acetylgalactosides; Region: GH20_hexosaminidase; cl02948 167879002624 active site 167879002625 C-terminal Early set domain associated with the catalytic domain of chitobiase (also called N-acetylglucosaminidase); Region: E_set_Chitobiase_C; cd02847 167879002626 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 167879002627 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 167879002628 nucleotide binding site [chemical binding]; other site 167879002629 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 167879002630 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 167879002631 active site 167879002632 dimer interface [polypeptide binding]; other site 167879002633 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 167879002634 L-fucose transporter; Provisional; Region: PRK10133; cl17665 167879002635 TIGR02922 family protein; Region: TIGR02922 167879002636 CcmE; Region: CcmE; cl00994 167879002637 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 167879002638 heme exporter protein CcmC; Region: ccmC; TIGR01191 167879002639 heme exporter protein CcmB; Region: ccmB; TIGR01190 167879002640 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 167879002641 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 167879002642 Walker A/P-loop; other site 167879002643 ATP binding site [chemical binding]; other site 167879002644 Q-loop/lid; other site 167879002645 ABC transporter signature motif; other site 167879002646 Walker B; other site 167879002647 D-loop; other site 167879002648 H-loop/switch region; other site 167879002649 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 167879002650 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 167879002651 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 167879002652 catalytic residues [active] 167879002653 central insert; other site 167879002654 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 167879002655 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 167879002656 TPR repeat; Region: TPR_11; pfam13414 167879002657 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 167879002658 binding surface 167879002659 TPR motif; other site 167879002660 Ferrochelatase; Region: Ferrochelatase; pfam00762 167879002661 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 167879002662 C-terminal domain interface [polypeptide binding]; other site 167879002663 active site 167879002664 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 167879002665 active site 167879002666 N-terminal domain interface [polypeptide binding]; other site 167879002667 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 167879002668 active site 167879002669 DNA polymerase IV; Validated; Region: PRK02406 167879002670 DNA binding site [nucleotide binding] 167879002671 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 167879002672 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 167879002673 motif 1; other site 167879002674 active site 167879002675 motif 2; other site 167879002676 motif 3; other site 167879002677 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 167879002678 DHHA1 domain; Region: DHHA1; pfam02272 167879002679 carbon storage regulator; Provisional; Region: PRK01712 167879002680 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; pfam04277 167879002681 oxaloacetate decarboxylase; Provisional; Region: PRK14040 167879002682 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 167879002683 active site 167879002684 catalytic residues [active] 167879002685 metal binding site [ion binding]; metal-binding site 167879002686 homodimer binding site [polypeptide binding]; other site 167879002687 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 167879002688 carboxyltransferase (CT) interaction site; other site 167879002689 biotinylation site [posttranslational modification]; other site 167879002690 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 167879002691 Peptidase family M48; Region: Peptidase_M48; pfam01435 167879002692 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 167879002693 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 167879002694 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 167879002695 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 167879002696 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 167879002697 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 167879002698 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 167879002699 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 167879002700 [4Fe-4S] binding site [ion binding]; other site 167879002701 molybdopterin cofactor binding site; other site 167879002702 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 167879002703 molybdopterin cofactor binding site; other site 167879002704 NapD protein; Region: NapD; pfam03927 167879002705 ferredoxin-type protein; Provisional; Region: PRK10194 167879002706 Periplasmic nitrate reductase protein NapE; Region: NapE; pfam06796 167879002707 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 167879002708 Helicase; Region: Helicase_RecD; pfam05127 167879002709 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 167879002710 Possible tRNA binding domain; Region: tRNA_bind_2; pfam13725 167879002711 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 167879002712 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 167879002713 Walker A/P-loop; other site 167879002714 ATP binding site [chemical binding]; other site 167879002715 Q-loop/lid; other site 167879002716 ABC transporter signature motif; other site 167879002717 Walker B; other site 167879002718 D-loop; other site 167879002719 H-loop/switch region; other site 167879002720 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 167879002721 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 167879002722 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 167879002723 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 167879002724 dimer interface [polypeptide binding]; other site 167879002725 active site 167879002726 CoA binding pocket [chemical binding]; other site 167879002727 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 167879002728 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 167879002729 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 167879002730 substrate binding site; other site 167879002731 dimer interface; other site 167879002732 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 167879002733 homotrimer interaction site [polypeptide binding]; other site 167879002734 zinc binding site [ion binding]; other site 167879002735 CDP-binding sites; other site 167879002736 tRNA pseudouridine synthase D (TruD); Region: TruD; pfam01142 167879002737 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 167879002738 Permutation of conserved domain; other site 167879002739 active site 167879002740 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 167879002741 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 167879002742 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 167879002743 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 167879002744 S-adenosylmethionine binding site [chemical binding]; other site 167879002745 Predicted membrane protein [Function unknown]; Region: COG1238 167879002746 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 167879002747 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 167879002748 Peptidase family M23; Region: Peptidase_M23; pfam01551 167879002749 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 167879002750 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 167879002751 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 167879002752 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 167879002753 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 167879002754 DNA binding residues [nucleotide binding] 167879002755 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 167879002756 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 167879002757 E3 interaction surface; other site 167879002758 lipoyl attachment site [posttranslational modification]; other site 167879002759 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 167879002760 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 167879002761 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 167879002762 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 167879002763 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 167879002764 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 167879002765 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 167879002766 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 167879002767 catalytic loop [active] 167879002768 iron binding site [ion binding]; other site 167879002769 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 167879002770 FAD binding pocket [chemical binding]; other site 167879002771 FAD binding motif [chemical binding]; other site 167879002772 phosphate binding motif [ion binding]; other site 167879002773 beta-alpha-beta structure motif; other site 167879002774 NAD binding pocket [chemical binding]; other site 167879002775 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 167879002776 ApbE family; Region: ApbE; pfam02424 167879002777 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2991 167879002778 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 167879002779 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 167879002780 TPP-binding site; other site 167879002781 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 167879002782 PYR/PP interface [polypeptide binding]; other site 167879002783 dimer interface [polypeptide binding]; other site 167879002784 TPP binding site [chemical binding]; other site 167879002785 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 167879002786 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 167879002787 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 167879002788 substrate binding pocket [chemical binding]; other site 167879002789 chain length determination region; other site 167879002790 substrate-Mg2+ binding site; other site 167879002791 catalytic residues [active] 167879002792 aspartate-rich region 1; other site 167879002793 active site lid residues [active] 167879002794 aspartate-rich region 2; other site 167879002795 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 167879002796 flagellar motor protein PomA; Reviewed; Region: PRK08990 167879002797 flagellar motor protein MotA; Validated; Region: PRK08124 167879002798 flagellar motor protein MotB; Reviewed; Region: motB; PRK08944 167879002799 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 167879002800 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 167879002801 ligand binding site [chemical binding]; other site 167879002802 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 167879002803 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 167879002804 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 167879002805 Ligand Binding Site [chemical binding]; other site 167879002806 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 167879002807 active site residue [active] 167879002808 Ketopantoate reductase [Coenzyme metabolism]; Region: ApbA; COG1893 167879002809 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 167879002810 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 167879002811 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 167879002812 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 167879002813 MltA-interacting protein MipA; Region: MipA; cl01504 167879002814 homoserine O-succinyltransferase; Provisional; Region: PRK05368 167879002815 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 167879002816 proposed active site lysine [active] 167879002817 conserved cys residue [active] 167879002818 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 167879002819 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 167879002820 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 167879002821 substrate binding pocket [chemical binding]; other site 167879002822 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 167879002823 B12 binding site [chemical binding]; other site 167879002824 cobalt ligand [ion binding]; other site 167879002825 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 167879002826 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 167879002827 30S subunit binding site; other site 167879002828 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 167879002829 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 167879002830 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 167879002831 DNA repair protein RadA; Provisional; Region: PRK11823 167879002832 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 167879002833 Walker A motif; other site 167879002834 ATP binding site [chemical binding]; other site 167879002835 Walker B motif; other site 167879002836 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 167879002837 PilZ domain; Region: PilZ; pfam07238 167879002838 PilZ domain; Region: PilZ; pfam07238 167879002839 phosphoserine phosphatase SerB; Region: serB; TIGR00338 167879002840 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 167879002841 motif II; other site 167879002842 Bacterial virulence factor haemolysin; Region: SMP_2; cl11479 167879002843 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 167879002844 active site 167879002845 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 167879002846 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 167879002847 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 167879002848 active site 167879002849 HIGH motif; other site 167879002850 KMSK motif region; other site 167879002851 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 167879002852 tRNA binding surface [nucleotide binding]; other site 167879002853 anticodon binding site; other site 167879002854 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 167879002855 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 167879002856 G1 box; other site 167879002857 putative GEF interaction site [polypeptide binding]; other site 167879002858 GTP/Mg2+ binding site [chemical binding]; other site 167879002859 Switch I region; other site 167879002860 G2 box; other site 167879002861 G3 box; other site 167879002862 Switch II region; other site 167879002863 G4 box; other site 167879002864 G5 box; other site 167879002865 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 167879002866 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 167879002867 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 167879002868 Coenzyme A binding pocket [chemical binding]; other site 167879002869 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 167879002870 Isocitrate dehydrogenase kinase/phosphatase (AceK); Region: AceK; pfam06315 167879002871 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 167879002872 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 167879002873 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 167879002874 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 167879002875 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 167879002876 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 167879002877 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 167879002878 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 167879002879 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 167879002880 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 167879002881 Protein export membrane protein; Region: SecD_SecF; pfam02355 167879002882 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 167879002883 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 167879002884 ATP binding site [chemical binding]; other site 167879002885 Mg++ binding site [ion binding]; other site 167879002886 motif III; other site 167879002887 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 167879002888 nucleotide binding region [chemical binding]; other site 167879002889 ATP-binding site [chemical binding]; other site 167879002890 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 167879002891 active site 167879002892 SAM binding site [chemical binding]; other site 167879002893 homodimer interface [polypeptide binding]; other site 167879002894 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 167879002895 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 167879002896 active site 167879002897 dimerization interface [polypeptide binding]; other site 167879002898 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 167879002899 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 167879002900 serine O-acetyltransferase; Region: cysE; TIGR01172 167879002901 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 167879002902 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 167879002903 trimer interface [polypeptide binding]; other site 167879002904 active site 167879002905 substrate binding site [chemical binding]; other site 167879002906 CoA binding site [chemical binding]; other site 167879002907 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 167879002908 Rrf2 family protein; Region: rrf2_super; TIGR00738 167879002909 cysteine desulfurase; Provisional; Region: PRK14012 167879002910 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 167879002911 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 167879002912 catalytic residue [active] 167879002913 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 167879002914 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 167879002915 trimerization site [polypeptide binding]; other site 167879002916 active site 167879002917 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 167879002918 co-chaperone HscB; Provisional; Region: hscB; PRK05014 167879002919 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 167879002920 HSP70 interaction site [polypeptide binding]; other site 167879002921 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 167879002922 chaperone protein HscA; Provisional; Region: hscA; PRK05183 167879002923 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 167879002924 nucleotide binding site [chemical binding]; other site 167879002925 putative NEF/HSP70 interaction site [polypeptide binding]; other site 167879002926 SBD interface [polypeptide binding]; other site 167879002927 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 167879002928 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 167879002929 catalytic loop [active] 167879002930 iron binding site [ion binding]; other site 167879002931 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879002932 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879002933 metal binding site [ion binding]; metal-binding site 167879002934 active site 167879002935 I-site; other site 167879002936 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 167879002937 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 167879002938 GAF domain; Region: GAF_3; pfam13492 167879002939 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 167879002940 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879002941 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879002942 metal binding site [ion binding]; metal-binding site 167879002943 active site 167879002944 I-site; other site 167879002945 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 167879002946 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 167879002947 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 167879002948 pyridoxal 5'-phosphate binding site [chemical binding]; other site 167879002949 homodimer interface [polypeptide binding]; other site 167879002950 catalytic residue [active] 167879002951 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 167879002952 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 167879002953 catalytic core [active] 167879002954 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 167879002955 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 167879002956 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 167879002957 catalytic triad [active] 167879002958 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 167879002959 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 167879002960 homodimer interface [polypeptide binding]; other site 167879002961 Walker A motif; other site 167879002962 ATP binding site [chemical binding]; other site 167879002963 hydroxycobalamin binding site [chemical binding]; other site 167879002964 Walker B motif; other site 167879002965 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 167879002966 methionine synthase; Provisional; Region: PRK01207 167879002967 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 167879002968 substrate binding site [chemical binding]; other site 167879002969 THF binding site; other site 167879002970 zinc-binding site [ion binding]; other site 167879002971 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 167879002972 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 167879002973 Pseudouridine synthase, Escherichia coli RluE; Region: PseudoU_synth_RluE; cd02566 167879002974 pseudouridine synthase; Region: TIGR00093 167879002975 probable active site [active] 167879002976 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 167879002977 Peptidase family U32; Region: Peptidase_U32; pfam01136 167879002978 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 167879002979 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 167879002980 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 167879002981 putative N-terminal domain interface [polypeptide binding]; other site 167879002982 putative dimer interface [polypeptide binding]; other site 167879002983 putative substrate binding pocket (H-site) [chemical binding]; other site 167879002984 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_27; cd04686 167879002985 nudix motif; other site 167879002986 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 167879002987 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 167879002988 non-specific DNA binding site [nucleotide binding]; other site 167879002989 salt bridge; other site 167879002990 sequence-specific DNA binding site [nucleotide binding]; other site 167879002991 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 167879002992 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 167879002993 N-terminal plug; other site 167879002994 ligand-binding site [chemical binding]; other site 167879002995 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 167879002996 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 167879002997 cobalamin binding residues [chemical binding]; other site 167879002998 putative BtuC binding residues; other site 167879002999 dimer interface [polypeptide binding]; other site 167879003000 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 167879003001 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 167879003002 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 167879003003 homodimer interface [polypeptide binding]; other site 167879003004 Walker A motif; other site 167879003005 ATP binding site [chemical binding]; other site 167879003006 hydroxycobalamin binding site [chemical binding]; other site 167879003007 Walker B motif; other site 167879003008 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 167879003009 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 167879003010 ABC-ATPase subunit interface; other site 167879003011 dimer interface [polypeptide binding]; other site 167879003012 putative PBP binding regions; other site 167879003013 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 167879003014 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 167879003015 Walker A/P-loop; other site 167879003016 ATP binding site [chemical binding]; other site 167879003017 Q-loop/lid; other site 167879003018 ABC transporter signature motif; other site 167879003019 Walker B; other site 167879003020 D-loop; other site 167879003021 H-loop/switch region; other site 167879003022 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 167879003023 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 167879003024 heme binding site [chemical binding]; other site 167879003025 ferroxidase pore; other site 167879003026 ferroxidase diiron center [ion binding]; other site 167879003027 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 167879003028 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 167879003029 heme binding site [chemical binding]; other site 167879003030 ferroxidase pore; other site 167879003031 ferroxidase diiron center [ion binding]; other site 167879003032 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 167879003033 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 167879003034 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 167879003035 active site 167879003036 Zn binding site [ion binding]; other site 167879003037 Uncharacterized conserved protein [Function unknown]; Region: COG2966 167879003038 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 167879003039 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 167879003040 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 167879003041 intersubunit interface [polypeptide binding]; other site 167879003042 active site 167879003043 Zn2+ binding site [ion binding]; other site 167879003044 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 167879003045 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 167879003046 active site pocket [active] 167879003047 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 167879003048 Amidohydrolase; Region: Amidohydro_2; pfam04909 167879003049 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 167879003050 classical (c) SDRs; Region: SDR_c; cd05233 167879003051 NAD(P) binding site [chemical binding]; other site 167879003052 active site 167879003053 Protein of unknown function (DUF3010); Region: DUF3010; pfam11215 167879003054 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 167879003055 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 167879003056 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 167879003057 active site 167879003058 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 167879003059 Nudix hydrolase homolog; Region: PLN02791 167879003060 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 167879003061 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 167879003062 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 167879003063 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 167879003064 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 167879003065 active site 167879003066 Riboflavin kinase; Region: Flavokinase; smart00904 167879003067 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 167879003068 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 167879003069 active site 167879003070 HIGH motif; other site 167879003071 nucleotide binding site [chemical binding]; other site 167879003072 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 167879003073 active site 167879003074 KMSKS motif; other site 167879003075 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 167879003076 tRNA binding surface [nucleotide binding]; other site 167879003077 anticodon binding site; other site 167879003078 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 167879003079 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 167879003080 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 167879003081 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 167879003082 Glycoprotease family; Region: Peptidase_M22; pfam00814 167879003083 Peptidase M50B-like; Region: Peptidase_M50B; pfam13398 167879003084 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 167879003085 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 167879003086 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 167879003087 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 167879003088 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 167879003089 acyl-activating enzyme (AAE) consensus motif; other site 167879003090 putative AMP binding site [chemical binding]; other site 167879003091 putative active site [active] 167879003092 putative CoA binding site [chemical binding]; other site 167879003093 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 167879003094 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 167879003095 NAD(P) binding site [chemical binding]; other site 167879003096 active site 167879003097 extracellular lipase, Pla-1/cef family; Region: lipase_Pla1_cef; TIGR03502 167879003098 Bacterial virulence factor lipase N-terminal; Region: Lipase_bact_N; pfam12262 167879003099 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 167879003100 putative inner membrane peptidase; Provisional; Region: PRK11778 167879003101 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 167879003102 tandem repeat interface [polypeptide binding]; other site 167879003103 oligomer interface [polypeptide binding]; other site 167879003104 active site residues [active] 167879003105 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 167879003106 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 167879003107 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 167879003108 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 167879003109 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 167879003110 Agmatinase-like family; Region: Agmatinase-like; cd09990 167879003111 active site 167879003112 oligomer interface [polypeptide binding]; other site 167879003113 Mn binding site [ion binding]; other site 167879003114 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 167879003115 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 167879003116 active site 167879003117 interdomain interaction site; other site 167879003118 putative metal-binding site [ion binding]; other site 167879003119 nucleotide binding site [chemical binding]; other site 167879003120 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 167879003121 domain I; other site 167879003122 DNA binding groove [nucleotide binding] 167879003123 phosphate binding site [ion binding]; other site 167879003124 domain II; other site 167879003125 domain III; other site 167879003126 nucleotide binding site [chemical binding]; other site 167879003127 catalytic site [active] 167879003128 domain IV; other site 167879003129 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 167879003130 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 167879003131 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 167879003132 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 167879003133 Ribosome recycling factor; Region: RRF_GI; pfam12614 167879003134 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 167879003135 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879003136 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 167879003137 substrate binding site [chemical binding]; other site 167879003138 dimerization interface [polypeptide binding]; other site 167879003139 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 167879003140 putative protease; Provisional; Region: PRK15452 167879003141 Peptidase family U32; Region: Peptidase_U32; pfam01136 167879003142 HDOD domain; Region: HDOD; pfam08668 167879003143 Putative exonuclease, RdgC; Region: RdgC; pfam04381 167879003144 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 167879003145 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 167879003146 ATP binding site [chemical binding]; other site 167879003147 G-X-G motif; other site 167879003148 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 167879003149 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 167879003150 trimer interface [polypeptide binding]; other site 167879003151 eyelet of channel; other site 167879003152 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 167879003153 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 167879003154 active site 167879003155 phosphorylation site [posttranslational modification] 167879003156 intermolecular recognition site; other site 167879003157 dimerization interface [polypeptide binding]; other site 167879003158 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 167879003159 DNA binding site [nucleotide binding] 167879003160 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 167879003161 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 167879003162 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 167879003163 dimer interface [polypeptide binding]; other site 167879003164 phosphorylation site [posttranslational modification] 167879003165 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 167879003166 ATP binding site [chemical binding]; other site 167879003167 Mg2+ binding site [ion binding]; other site 167879003168 G-X-G motif; other site 167879003169 PBP superfamily domain; Region: PBP_like_2; cl17296 167879003170 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 167879003171 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 167879003172 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 167879003173 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 167879003174 PilX N-terminal; Region: PilX_N; pfam14341 167879003175 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 167879003176 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 167879003177 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 167879003178 Type II transport protein GspH; Region: GspH; pfam12019 167879003179 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 167879003180 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 167879003181 Prephenate dehydratase; Region: PDT; pfam00800 167879003182 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 167879003183 putative L-Phe binding site [chemical binding]; other site 167879003184 MAPEG family; Region: MAPEG; cl09190 167879003185 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 167879003186 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 167879003187 active site 167879003188 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 167879003189 active site 167879003190 LrgB-like family; Region: LrgB; cl00596 167879003191 LrgA family; Region: LrgA; pfam03788 167879003192 Transcriptional regulator [Transcription]; Region: LysR; COG0583 167879003193 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879003194 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 167879003195 substrate binding pocket [chemical binding]; other site 167879003196 dimerization interface [polypeptide binding]; other site 167879003197 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 167879003198 tetramer interface [polypeptide binding]; other site 167879003199 active site 167879003200 Mg2+/Mn2+ binding site [ion binding]; other site 167879003201 isocitrate lyase; Region: PLN02892 167879003202 Protein of unknown function, DUF481; Region: DUF481; pfam04338 167879003203 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 167879003204 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 167879003205 HlyD family secretion protein; Region: HlyD_3; pfam13437 167879003206 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 167879003207 Protein export membrane protein; Region: SecD_SecF; cl14618 167879003208 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 167879003209 dimerization interface [polypeptide binding]; other site 167879003210 putative DNA binding site [nucleotide binding]; other site 167879003211 putative Zn2+ binding site [ion binding]; other site 167879003212 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 167879003213 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 167879003214 active site residue [active] 167879003215 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 167879003216 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 167879003217 diaminopimelate decarboxylase; Region: lysA; TIGR01048 167879003218 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 167879003219 active site 167879003220 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 167879003221 substrate binding site [chemical binding]; other site 167879003222 catalytic residues [active] 167879003223 dimer interface [polypeptide binding]; other site 167879003224 Predicted flavoprotein [General function prediction only]; Region: COG0431 167879003225 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 167879003226 Transcriptional regulator [Transcription]; Region: LysR; COG0583 167879003227 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879003228 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 167879003229 putative effector binding pocket; other site 167879003230 dimerization interface [polypeptide binding]; other site 167879003231 Protein of unknown function (DUF2982); Region: DUF2982; pfam11201 167879003232 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 167879003233 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 167879003234 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 167879003235 Peptidase family M23; Region: Peptidase_M23; pfam01551 167879003236 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 167879003237 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 167879003238 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 167879003239 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 167879003240 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 167879003241 Walker A/P-loop; other site 167879003242 ATP binding site [chemical binding]; other site 167879003243 Q-loop/lid; other site 167879003244 ABC transporter signature motif; other site 167879003245 Walker B; other site 167879003246 D-loop; other site 167879003247 H-loop/switch region; other site 167879003248 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 167879003249 HlyD family secretion protein; Region: HlyD_3; pfam13437 167879003250 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 167879003251 hypothetical protein; Validated; Region: PRK00228 167879003252 glutathione synthetase; Provisional; Region: PRK05246 167879003253 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 167879003254 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 167879003255 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 167879003256 RNA methyltransferase, RsmE family; Region: TIGR00046 167879003257 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 167879003258 S-adenosylmethionine synthetase; Validated; Region: PRK05250 167879003259 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 167879003260 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 167879003261 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 167879003262 glutamate racemase; Provisional; Region: PRK00865 167879003263 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 167879003264 Major Facilitator Superfamily; Region: MFS_1; pfam07690 167879003265 putative substrate translocation pore; other site 167879003266 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 167879003267 GAF domain; Region: GAF; pfam01590 167879003268 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 167879003269 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 167879003270 ATP binding site [chemical binding]; other site 167879003271 Mg2+ binding site [ion binding]; other site 167879003272 G-X-G motif; other site 167879003273 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 167879003274 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 167879003275 active site 167879003276 phosphorylation site [posttranslational modification] 167879003277 intermolecular recognition site; other site 167879003278 dimerization interface [polypeptide binding]; other site 167879003279 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 167879003280 DNA binding residues [nucleotide binding] 167879003281 dimerization interface [polypeptide binding]; other site 167879003282 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 167879003283 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 167879003284 Histidine kinase; Region: HisKA_3; pfam07730 167879003285 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 167879003286 ATP binding site [chemical binding]; other site 167879003287 Mg2+ binding site [ion binding]; other site 167879003288 G-X-G motif; other site 167879003289 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 167879003290 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 167879003291 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 167879003292 DctM-like transporters; Region: DctM; pfam06808 167879003293 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 167879003294 HAMP domain; Region: HAMP; pfam00672 167879003295 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 167879003296 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 167879003297 dimer interface [polypeptide binding]; other site 167879003298 putative CheW interface [polypeptide binding]; other site 167879003299 Cell division protein ZapA; Region: ZapA; pfam05164 167879003300 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 167879003301 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 167879003302 proline aminopeptidase P II; Provisional; Region: PRK10879 167879003303 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 167879003304 active site 167879003305 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 167879003306 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 167879003307 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 167879003308 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 167879003309 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 167879003310 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 167879003311 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 167879003312 lipoyl attachment site [posttranslational modification]; other site 167879003313 glycine dehydrogenase; Provisional; Region: PRK05367 167879003314 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 167879003315 tetramer interface [polypeptide binding]; other site 167879003316 pyridoxal 5'-phosphate binding site [chemical binding]; other site 167879003317 catalytic residue [active] 167879003318 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 167879003319 tetramer interface [polypeptide binding]; other site 167879003320 pyridoxal 5'-phosphate binding site [chemical binding]; other site 167879003321 catalytic residue [active] 167879003322 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 167879003323 substrate binding pocket [chemical binding]; other site 167879003324 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 167879003325 membrane-bound complex binding site; other site 167879003326 hinge residues; other site 167879003327 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 167879003328 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 167879003329 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 167879003330 Transcriptional regulator [Transcription]; Region: LysR; COG0583 167879003331 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879003332 The C-terminal substrate binding domain of LysR-type transcriptional regulator LeuO, an activator of leucine synthesis operon, contains the type 2 periplasmic binding fold; Region: PBP2_LeuO; cd08466 167879003333 putative substrate binding pocket [chemical binding]; other site 167879003334 putative dimerization interface [polypeptide binding]; other site 167879003335 Protein of unknown function (DUF3360); Region: DUF3360; pfam11840 167879003336 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 167879003337 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 167879003338 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 167879003339 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 167879003340 potential catalytic triad [active] 167879003341 conserved cys residue [active] 167879003342 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 167879003343 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 167879003344 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 167879003345 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 167879003346 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 167879003347 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 167879003348 Homo sapiens 239FB and related proteins, metallophosphatase domain; Region: MPP_239FB; cd07379 167879003349 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 167879003350 putative active site [active] 167879003351 putative metal binding site [ion binding]; other site 167879003352 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; cd00130 167879003353 PAS fold; Region: PAS_3; pfam08447 167879003354 putative active site [active] 167879003355 heme pocket [chemical binding]; other site 167879003356 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879003357 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879003358 metal binding site [ion binding]; metal-binding site 167879003359 active site 167879003360 I-site; other site 167879003361 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 167879003362 putative transposase OrfB; Reviewed; Region: PHA02517 167879003363 HTH-like domain; Region: HTH_21; pfam13276 167879003364 Integrase core domain; Region: rve; pfam00665 167879003365 Integrase core domain; Region: rve_3; pfam13683 167879003366 Transposase; Region: HTH_Tnp_1; pfam01527 167879003367 Winged helix-turn helix; Region: HTH_29; pfam13551 167879003368 PAS domain S-box; Region: sensory_box; TIGR00229 167879003369 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; cd00130 167879003370 putative active site [active] 167879003371 heme pocket [chemical binding]; other site 167879003372 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879003373 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879003374 metal binding site [ion binding]; metal-binding site 167879003375 active site 167879003376 I-site; other site 167879003377 conserved hypothetical protein; Region: TIGR02285 167879003378 Pirin; Region: Pirin; pfam02678 167879003379 Pirin-related protein [General function prediction only]; Region: COG1741 167879003380 Transcriptional regulator [Transcription]; Region: LysR; COG0583 167879003381 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879003382 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 167879003383 putative effector binding pocket; other site 167879003384 dimerization interface [polypeptide binding]; other site 167879003385 This entry represents the putative helicase A859L; Region: T5orf172; smart00974 167879003386 hypothetical protein; Provisional; Region: PRK10220 167879003387 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 167879003388 PhnA protein; Region: PhnA; pfam03831 167879003389 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 167879003390 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 167879003391 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 167879003392 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 167879003393 nucleotide binding region [chemical binding]; other site 167879003394 ATP-binding site [chemical binding]; other site 167879003395 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 167879003396 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 167879003397 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 167879003398 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 167879003399 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 167879003400 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 167879003401 active site 167879003402 metal binding site [ion binding]; metal-binding site 167879003403 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 167879003404 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 167879003405 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 167879003406 putative metal binding site [ion binding]; other site 167879003407 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 167879003408 heterotetramer interface [polypeptide binding]; other site 167879003409 active site pocket [active] 167879003410 cleavage site 167879003411 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 167879003412 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 167879003413 nucleotide binding site [chemical binding]; other site 167879003414 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 167879003415 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 167879003416 ligand binding site [chemical binding]; other site 167879003417 flexible hinge region; other site 167879003418 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 167879003419 Transglycosylase SLT domain; Region: SLT_2; pfam13406 167879003420 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 167879003421 N-acetyl-D-glucosamine binding site [chemical binding]; other site 167879003422 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 167879003423 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 167879003424 Transcriptional regulator [Transcription]; Region: LysR; COG0583 167879003425 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879003426 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 167879003427 putative effector binding pocket; other site 167879003428 dimerization interface [polypeptide binding]; other site 167879003429 Putative cyclase; Region: Cyclase; cl00814 167879003430 Predicted transcriptional regulators [Transcription]; Region: COG1733 167879003431 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 167879003432 dimerization interface [polypeptide binding]; other site 167879003433 putative DNA binding site [nucleotide binding]; other site 167879003434 putative Zn2+ binding site [ion binding]; other site 167879003435 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 167879003436 NAD(P)+ dependent aldehyde dehydrogenase family; Region: ALDH; cd07078 167879003437 NAD(P) binding site [chemical binding]; other site 167879003438 catalytic residues [active] 167879003439 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 167879003440 H+ Antiporter protein; Region: 2A0121; TIGR00900 167879003441 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 167879003442 putative substrate translocation pore; other site 167879003443 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; cd00130 167879003444 PAS domain; Region: PAS_9; pfam13426 167879003445 putative active site [active] 167879003446 heme pocket [chemical binding]; other site 167879003447 PAS domain S-box; Region: sensory_box; TIGR00229 167879003448 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; cd00130 167879003449 putative active site [active] 167879003450 heme pocket [chemical binding]; other site 167879003451 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879003452 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879003453 metal binding site [ion binding]; metal-binding site 167879003454 active site 167879003455 I-site; other site 167879003456 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 167879003457 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 167879003458 active site 167879003459 transcriptional regulator BetI; Validated; Region: PRK00767 167879003460 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 167879003461 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 167879003462 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 167879003463 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 167879003464 tetrameric interface [polypeptide binding]; other site 167879003465 NAD binding site [chemical binding]; other site 167879003466 catalytic residues [active] 167879003467 choline dehydrogenase; Validated; Region: PRK02106 167879003468 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 167879003469 BCCT family transporter; Region: BCCT; cl00569 167879003470 conserved hypothetical protein, proteobacterial; Region: gcw_chp; TIGR02001 167879003471 MarR family; Region: MarR; pfam01047 167879003472 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 167879003473 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 167879003474 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 167879003475 catalytic residue [active] 167879003476 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 167879003477 HSP70 interaction site [polypeptide binding]; other site 167879003478 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 167879003479 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 167879003480 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 167879003481 dimer interface [polypeptide binding]; other site 167879003482 active site 167879003483 heme binding site [chemical binding]; other site 167879003484 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 167879003485 Transcriptional regulator [Transcription]; Region: LysR; COG0583 167879003486 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879003487 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 167879003488 dimerization interface [polypeptide binding]; other site 167879003489 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 167879003490 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 167879003491 N-terminal plug; other site 167879003492 ligand-binding site [chemical binding]; other site 167879003493 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 167879003494 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 167879003495 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, 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...; Region: Met_dep_hydrolase_A; cd01299 167879003496 active site 167879003497 FOG: CBS domain [General function prediction only]; Region: COG0517 167879003498 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_27; cd04640 167879003499 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 167879003500 EAL domain; Region: EAL; pfam00563 167879003501 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 167879003502 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 167879003503 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 167879003504 Protein export membrane protein; Region: SecD_SecF; cl14618 167879003505 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 167879003506 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 167879003507 HlyD family secretion protein; Region: HlyD_3; pfam13437 167879003508 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 167879003509 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 167879003510 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 167879003511 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 167879003512 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 167879003513 active site 167879003514 purine riboside binding site [chemical binding]; other site 167879003515 Radical SAM superfamily; Region: Radical_SAM; pfam04055 167879003516 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 167879003517 FeS/SAM binding site; other site 167879003518 hypothetical protein; Provisional; Region: PRK06156 167879003519 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 167879003520 active site 167879003521 metal binding site [ion binding]; metal-binding site 167879003522 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 167879003523 dimerization interface [polypeptide binding]; other site 167879003524 substrate binding pocket [chemical binding]; other site 167879003525 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 167879003526 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 167879003527 Walker A/P-loop; other site 167879003528 ATP binding site [chemical binding]; other site 167879003529 Q-loop/lid; other site 167879003530 ABC transporter signature motif; other site 167879003531 Walker B; other site 167879003532 D-loop; other site 167879003533 H-loop/switch region; other site 167879003534 ABC transporter; Region: ABC_tran_2; pfam12848 167879003535 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 167879003536 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_13; cd13141 167879003537 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 167879003538 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 167879003539 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 167879003540 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 167879003541 Fasciclin domain; Region: Fasciclin; pfam02469 167879003542 Fasciclin domain; Region: Fasciclin; pfam02469 167879003543 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 167879003544 Fasciclin domain; Region: Fasciclin; pfam02469 167879003545 Fasciclin domain; Region: Fasciclin; pfam02469 167879003546 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 167879003547 RNA polymerase sigma factor; Provisional; Region: PRK12526 167879003548 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 167879003549 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 167879003550 DNA binding residues [nucleotide binding] 167879003551 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 167879003552 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 167879003553 Protein of unknown function (DUF523); Region: DUF523; pfam04463 167879003554 Uncharacterized conserved protein [Function unknown]; Region: COG3272 167879003555 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 167879003556 DNA photolyase; Region: DNA_photolyase; pfam00875 167879003557 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 167879003558 SnoaL-like domain; Region: SnoaL_2; pfam12680 167879003559 short chain dehydrogenase; Provisional; Region: PRK06101 167879003560 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 167879003561 NAD(P) binding site [chemical binding]; other site 167879003562 active site 167879003563 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 167879003564 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 167879003565 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 167879003566 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 167879003567 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 167879003568 S-adenosylmethionine binding site [chemical binding]; other site 167879003569 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 167879003570 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 167879003571 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 167879003572 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 167879003573 active site 167879003574 phosphorylation site [posttranslational modification] 167879003575 intermolecular recognition site; other site 167879003576 dimerization interface [polypeptide binding]; other site 167879003577 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 167879003578 DNA binding site [nucleotide binding] 167879003579 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 167879003580 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 167879003581 ATP binding site [chemical binding]; other site 167879003582 G-X-G motif; other site 167879003583 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 167879003584 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 167879003585 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 167879003586 putative NAD(P) binding site [chemical binding]; other site 167879003587 dimer interface [polypeptide binding]; other site 167879003588 Transcriptional regulator [Transcription]; Region: LysR; COG0583 167879003589 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879003590 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 167879003591 putative effector binding pocket; other site 167879003592 dimerization interface [polypeptide binding]; other site 167879003593 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 167879003594 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 167879003595 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 167879003596 putative DNA binding site [nucleotide binding]; other site 167879003597 putative Zn2+ binding site [ion binding]; other site 167879003598 AsnC family; Region: AsnC_trans_reg; pfam01037 167879003599 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 167879003600 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 167879003601 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 167879003602 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 167879003603 FMN binding site [chemical binding]; other site 167879003604 active site 167879003605 substrate binding site [chemical binding]; other site 167879003606 catalytic residue [active] 167879003607 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 167879003608 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 167879003609 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; cd00130 167879003610 PAS domain; Region: PAS_9; pfam13426 167879003611 putative active site [active] 167879003612 heme pocket [chemical binding]; other site 167879003613 Porin subfamily; Region: Porin_2; pfam02530 167879003614 DctM-like transporters; Region: DctM; pfam06808 167879003615 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 167879003616 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 167879003617 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 167879003618 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 167879003619 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 167879003620 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 167879003621 Histidine kinase; Region: HisKA_3; pfam07730 167879003622 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 167879003623 ATP binding site [chemical binding]; other site 167879003624 Mg2+ binding site [ion binding]; other site 167879003625 G-X-G motif; other site 167879003626 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 167879003627 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 167879003628 active site 167879003629 phosphorylation site [posttranslational modification] 167879003630 intermolecular recognition site; other site 167879003631 dimerization interface [polypeptide binding]; other site 167879003632 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 167879003633 DNA binding residues [nucleotide binding] 167879003634 dimerization interface [polypeptide binding]; other site 167879003635 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 167879003636 Ligand Binding Site [chemical binding]; other site 167879003637 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 167879003638 active site 167879003639 Zn binding site [ion binding]; other site 167879003640 FOG: PKD repeat [General function prediction only]; Region: COG3291 167879003641 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 167879003642 Transposase; Region: DEDD_Tnp_IS110; pfam01548 167879003643 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 167879003644 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 167879003645 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 167879003646 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 167879003647 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 167879003648 catalytic residues [active] 167879003649 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 167879003650 Beta-lactamase; Region: Beta-lactamase; pfam00144 167879003651 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 167879003652 This entry represents the putative helicase A859L; Region: T5orf172; smart00974 167879003653 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 167879003654 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 167879003655 ATP binding site [chemical binding]; other site 167879003656 Mg++ binding site [ion binding]; other site 167879003657 motif III; other site 167879003658 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 167879003659 nucleotide binding region [chemical binding]; other site 167879003660 ATP-binding site [chemical binding]; other site 167879003661 Mechanosensitive ion channel; Region: MS_channel; pfam00924 167879003662 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 167879003663 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 167879003664 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 167879003665 Protein of unknown function (DUF3545); Region: DUF3545; pfam12065 167879003666 MltA-interacting protein MipA; Region: MipA; cl01504 167879003667 Protein of unknown function (DUF3019); Region: DUF3019; pfam11456 167879003668 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 167879003669 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 167879003670 active site 167879003671 phosphorylation site [posttranslational modification] 167879003672 intermolecular recognition site; other site 167879003673 dimerization interface [polypeptide binding]; other site 167879003674 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 167879003675 DNA binding site [nucleotide binding] 167879003676 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 167879003677 dimerization interface [polypeptide binding]; other site 167879003678 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 167879003679 dimer interface [polypeptide binding]; other site 167879003680 phosphorylation site [posttranslational modification] 167879003681 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 167879003682 ATP binding site [chemical binding]; other site 167879003683 Mg2+ binding site [ion binding]; other site 167879003684 G-X-G motif; other site 167879003685 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 167879003686 CoA-transferase family III; Region: CoA_transf_3; pfam02515 167879003687 enoyl-CoA hydratase; Provisional; Region: PRK05862 167879003688 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 167879003689 substrate binding site [chemical binding]; other site 167879003690 oxyanion hole (OAH) forming residues; other site 167879003691 trimer interface [polypeptide binding]; other site 167879003692 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 167879003693 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH6; cd08194 167879003694 putative active site [active] 167879003695 metal binding site [ion binding]; metal-binding site 167879003696 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 167879003697 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 167879003698 tetrameric interface [polypeptide binding]; other site 167879003699 NAD binding site [chemical binding]; other site 167879003700 catalytic residues [active] 167879003701 Transcriptional regulator [Transcription]; Region: IclR; COG1414 167879003702 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 167879003703 Bacterial transcriptional regulator; Region: IclR; pfam01614 167879003704 Transcriptional regulator [Transcription]; Region: LysR; COG0583 167879003705 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879003706 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 167879003707 putative effector binding pocket; other site 167879003708 dimerization interface [polypeptide binding]; other site 167879003709 LysE type translocator; Region: LysE; cl00565 167879003710 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 167879003711 CreA protein; Region: CreA; pfam05981 167879003712 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 167879003713 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 167879003714 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 167879003715 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 167879003716 Cache domain; Region: Cache_1; pfam02743 167879003717 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 167879003718 dimerization interface [polypeptide binding]; other site 167879003719 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 167879003720 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 167879003721 dimer interface [polypeptide binding]; other site 167879003722 putative CheW interface [polypeptide binding]; other site 167879003723 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 167879003724 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 167879003725 active site 167879003726 Zn binding site [ion binding]; other site 167879003727 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 167879003728 active site 167879003729 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 167879003730 Protein of unknown function (DUF2956); Region: DUF2956; pfam11169 167879003731 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 167879003732 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 167879003733 Protein of unknown function (DUF3604); Region: DUF3604; pfam12228 167879003734 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 167879003735 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 167879003736 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 167879003737 inhibitor site; inhibition site 167879003738 active site 167879003739 dimer interface [polypeptide binding]; other site 167879003740 catalytic residue [active] 167879003741 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 167879003742 Proline racemase; Region: Pro_racemase; pfam05544 167879003743 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 167879003744 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 167879003745 dimer interface [polypeptide binding]; other site 167879003746 NADP binding site [chemical binding]; other site 167879003747 catalytic residues [active] 167879003748 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 167879003749 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 167879003750 Proline racemase; Region: Pro_racemase; pfam05544 167879003751 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 167879003752 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 167879003753 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 167879003754 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 167879003755 active site 167879003756 ornithine cyclodeaminase; Validated; Region: PRK06141 167879003757 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 167879003758 Transcriptional regulator [Transcription]; Region: LysR; COG0583 167879003759 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879003760 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 167879003761 putative effector binding pocket; other site 167879003762 dimerization interface [polypeptide binding]; other site 167879003763 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 167879003764 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 167879003765 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 167879003766 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; cl00279 167879003767 active site 167879003768 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 167879003769 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 167879003770 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 167879003771 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; pfam09982 167879003772 elongation factor P; Provisional; Region: PRK04542 167879003773 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 167879003774 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 167879003775 RNA binding site [nucleotide binding]; other site 167879003776 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 167879003777 RNA binding site [nucleotide binding]; other site 167879003778 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_4; cd06231 167879003779 putative active site [active] 167879003780 Zn binding site [ion binding]; other site 167879003781 Predicted integral membrane protein [Function unknown]; Region: COG5616 167879003782 LPP20 lipoprotein; Region: LPP20; cl15824 167879003783 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 167879003784 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 167879003785 flagella basal body P-ring formation protein FlgA; Region: flgA_cterm; TIGR03170 167879003786 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 167879003787 Response regulator receiver domain; Region: Response_reg; pfam00072 167879003788 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 167879003789 active site 167879003790 phosphorylation site [posttranslational modification] 167879003791 intermolecular recognition site; other site 167879003792 dimerization interface [polypeptide binding]; other site 167879003793 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 167879003794 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 167879003795 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 167879003796 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 167879003797 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 167879003798 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12631 167879003799 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 167879003800 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 167879003801 Flagellar hook capping protein [Cell motility and secretion]; Region: FlgD; COG1843 167879003802 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 167879003803 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 167879003804 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 167879003805 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 167879003806 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 167879003807 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 167879003808 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 167879003809 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 167879003810 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 167879003811 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 167879003812 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 167879003813 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 167879003814 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 167879003815 Flagellar L-ring protein; Region: FlgH; pfam02107 167879003816 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 167879003817 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 167879003818 Rod binding protein; Region: Rod-binding; cl01626 167879003819 flagellar rod assembly protein/muramidase FlgJ; Provisional; Region: flgJ; PRK12712 167879003820 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 167879003821 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK05683 167879003822 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 167879003823 SNF-7-like protein; Provisional; Region: PTZ00464 167879003824 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 167879003825 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 167879003826 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 167879003827 flagellin; Provisional; Region: PRK12806 167879003828 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 167879003829 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 167879003830 Transposase IS200 like; Region: Y1_Tnp; pfam01797 167879003831 flagellin; Provisional; Region: PRK12806 167879003832 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 167879003833 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 167879003834 FlaG protein; Region: FlaG; pfam03646 167879003835 flagellar capping protein; Reviewed; Region: fliD; PRK08032 167879003836 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 167879003837 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 167879003838 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 167879003839 Flagellar protein FliS; Region: FliS; cl00654 167879003840 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 167879003841 Flagellar regulatory protein FleQ; Region: FleQ; pfam06490 167879003842 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 167879003843 Walker A motif; other site 167879003844 ATP binding site [chemical binding]; other site 167879003845 Walker B motif; other site 167879003846 arginine finger; other site 167879003847 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 167879003848 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 167879003849 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; cd00130 167879003850 putative active site [active] 167879003851 heme pocket [chemical binding]; other site 167879003852 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 167879003853 dimer interface [polypeptide binding]; other site 167879003854 phosphorylation site [posttranslational modification] 167879003855 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 167879003856 ATP binding site [chemical binding]; other site 167879003857 Mg2+ binding site [ion binding]; other site 167879003858 G-X-G motif; other site 167879003859 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 167879003860 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 167879003861 active site 167879003862 phosphorylation site [posttranslational modification] 167879003863 intermolecular recognition site; other site 167879003864 dimerization interface [polypeptide binding]; other site 167879003865 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 167879003866 Walker A motif; other site 167879003867 ATP binding site [chemical binding]; other site 167879003868 Walker B motif; other site 167879003869 arginine finger; other site 167879003870 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 167879003871 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 167879003872 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 167879003873 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 167879003874 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 167879003875 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 167879003876 FliG C-terminal domain; Region: FliG_C; pfam01706 167879003877 flagellar assembly protein H; Validated; Region: fliH; PRK05687 167879003878 Flagellar assembly protein FliH; Region: FliH; pfam02108 167879003879 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08972 167879003880 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 167879003881 Walker A motif; other site 167879003882 ATP binding site [chemical binding]; other site 167879003883 Walker B motif; other site 167879003884 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 167879003885 Flagellar FliJ protein; Region: FliJ; pfam02050 167879003886 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 167879003887 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK05696 167879003888 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 167879003889 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 167879003890 flagellar motor switch protein; Validated; Region: fliN; PRK08983 167879003891 flagellar biosynthetic protein FliO; Region: FliO_TIGR; TIGR03500 167879003892 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 167879003893 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 167879003894 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 167879003895 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 167879003896 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 167879003897 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 167879003898 FHIPEP family; Region: FHIPEP; pfam00771 167879003899 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK06995 167879003900 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 167879003901 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 167879003902 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 167879003903 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 167879003904 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 167879003905 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 167879003906 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 167879003907 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 167879003908 DNA binding residues [nucleotide binding] 167879003909 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 167879003910 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 167879003911 active site 167879003912 phosphorylation site [posttranslational modification] 167879003913 intermolecular recognition site; other site 167879003914 dimerization interface [polypeptide binding]; other site 167879003915 Chemotaxis phosphatase, CheZ; Region: CheZ; pfam04344 167879003916 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 167879003917 putative binding surface; other site 167879003918 active site 167879003919 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 167879003920 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 167879003921 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 167879003922 ATP binding site [chemical binding]; other site 167879003923 Mg2+ binding site [ion binding]; other site 167879003924 G-X-G motif; other site 167879003925 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 167879003926 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 167879003927 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 167879003928 active site 167879003929 phosphorylation site [posttranslational modification] 167879003930 intermolecular recognition site; other site 167879003931 dimerization interface [polypeptide binding]; other site 167879003932 CheB methylesterase; Region: CheB_methylest; pfam01339 167879003933 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 167879003934 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 167879003935 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 167879003936 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 167879003937 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 167879003938 ligand binding site [chemical binding]; other site 167879003939 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 167879003940 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 167879003941 P-loop; other site 167879003942 Magnesium ion binding site [ion binding]; other site 167879003943 transport-energizing ATPase, TRC40/GET3/ArsA family; Region: GET3_arsA_TRC40; TIGR00345 167879003944 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 167879003945 Magnesium ion binding site [ion binding]; other site 167879003946 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 167879003947 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 167879003948 putative CheA interaction surface; other site 167879003949 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 167879003950 VacJ like lipoprotein; Region: VacJ; cl01073 167879003951 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 167879003952 homopentamer interface [polypeptide binding]; other site 167879003953 active site 167879003954 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 167879003955 putative RNA binding site [nucleotide binding]; other site 167879003956 thiamine monophosphate kinase; Provisional; Region: PRK05731 167879003957 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 167879003958 ATP binding site [chemical binding]; other site 167879003959 dimerization interface [polypeptide binding]; other site 167879003960 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 167879003961 tetramer interfaces [polypeptide binding]; other site 167879003962 binuclear metal-binding site [ion binding]; other site 167879003963 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 167879003964 30S subunit binding site; other site 167879003965 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 167879003966 HlyD family secretion protein; Region: HlyD_3; pfam13437 167879003967 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 167879003968 Protein export membrane protein; Region: SecD_SecF; cl14618 167879003969 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 167879003970 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 167879003971 ATP binding site [chemical binding]; other site 167879003972 Mg++ binding site [ion binding]; other site 167879003973 motif III; other site 167879003974 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 167879003975 nucleotide binding region [chemical binding]; other site 167879003976 ATP-binding site [chemical binding]; other site 167879003977 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 167879003978 putative RNA binding site [nucleotide binding]; other site 167879003979 Predicted ATPase [General function prediction only]; Region: COG1485 167879003980 Protein of unknown function (DUF2884); Region: DUF2884; pfam11101 167879003981 Uncharacterized conserved protein [Function unknown]; Region: COG3148 167879003982 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 167879003983 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 167879003984 ligand binding site [chemical binding]; other site 167879003985 NAD binding site [chemical binding]; other site 167879003986 tetramer interface [polypeptide binding]; other site 167879003987 catalytic site [active] 167879003988 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 167879003989 L-serine binding site [chemical binding]; other site 167879003990 ACT domain interface; other site 167879003991 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 167879003992 tetramer (dimer of dimers) interface [polypeptide binding]; other site 167879003993 active site 167879003994 dimer interface [polypeptide binding]; other site 167879003995 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 167879003996 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 167879003997 trimer interface [polypeptide binding]; other site 167879003998 active site 167879003999 substrate binding site [chemical binding]; other site 167879004000 CoA binding site [chemical binding]; other site 167879004001 PII uridylyl-transferase; Provisional; Region: PRK05007 167879004002 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 167879004003 metal binding triad; other site 167879004004 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 167879004005 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 167879004006 Zn2+ binding site [ion binding]; other site 167879004007 Mg2+ binding site [ion binding]; other site 167879004008 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 167879004009 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 167879004010 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 167879004011 active site 167879004012 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 167879004013 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 167879004014 rRNA interaction site [nucleotide binding]; other site 167879004015 S8 interaction site; other site 167879004016 putative laminin-1 binding site; other site 167879004017 elongation factor Ts; Provisional; Region: tsf; PRK09377 167879004018 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 167879004019 Elongation factor TS; Region: EF_TS; pfam00889 167879004020 Elongation factor TS; Region: EF_TS; pfam00889 167879004021 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 167879004022 putative nucleotide binding site [chemical binding]; other site 167879004023 uridine monophosphate binding site [chemical binding]; other site 167879004024 homohexameric interface [polypeptide binding]; other site 167879004025 ribosome recycling factor; Reviewed; Region: frr; PRK00083 167879004026 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 167879004027 hinge region; other site 167879004028 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 167879004029 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 167879004030 catalytic residue [active] 167879004031 putative FPP diphosphate binding site; other site 167879004032 putative FPP binding hydrophobic cleft; other site 167879004033 dimer interface [polypeptide binding]; other site 167879004034 putative IPP diphosphate binding site; other site 167879004035 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 167879004036 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 167879004037 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 167879004038 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 167879004039 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 167879004040 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 167879004041 zinc metallopeptidase RseP; Provisional; Region: PRK10779 167879004042 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 167879004043 active site 167879004044 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 167879004045 protein binding site [polypeptide binding]; other site 167879004046 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 167879004047 protein binding site [polypeptide binding]; other site 167879004048 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 167879004049 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 167879004050 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 167879004051 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 167879004052 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 167879004053 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 167879004054 Surface antigen; Region: Bac_surface_Ag; pfam01103 167879004055 periplasmic chaperone; Provisional; Region: PRK10780 167879004056 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 167879004057 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 167879004058 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 167879004059 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 167879004060 trimer interface [polypeptide binding]; other site 167879004061 active site 167879004062 UDP-GlcNAc binding site [chemical binding]; other site 167879004063 lipid binding site [chemical binding]; lipid-binding site 167879004064 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 167879004065 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 167879004066 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 167879004067 active site 167879004068 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 167879004069 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 167879004070 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 167879004071 RNA/DNA hybrid binding site [nucleotide binding]; other site 167879004072 active site 167879004073 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 167879004074 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 167879004075 putative active site [active] 167879004076 putative PHP Thumb interface [polypeptide binding]; other site 167879004077 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 167879004078 generic binding surface II; other site 167879004079 generic binding surface I; other site 167879004080 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 167879004081 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 167879004082 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 167879004083 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 167879004084 Ligand Binding Site [chemical binding]; other site 167879004085 TilS substrate binding domain; Region: TilS; pfam09179 167879004086 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 167879004087 serine/threonine transporter SstT; Provisional; Region: PRK13628 167879004088 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 167879004089 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; smart00782 167879004090 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 167879004091 PhnA protein; Region: PhnA; pfam03831 167879004092 ferric uptake regulator; Provisional; Region: fur; PRK09462 167879004093 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 167879004094 metal binding site 2 [ion binding]; metal-binding site 167879004095 putative DNA binding helix; other site 167879004096 metal binding site 1 [ion binding]; metal-binding site 167879004097 dimer interface [polypeptide binding]; other site 167879004098 structural Zn2+ binding site [ion binding]; other site 167879004099 flavodoxin FldA; Validated; Region: PRK09267 167879004100 LexA regulated protein; Provisional; Region: PRK11675 167879004101 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 167879004102 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 167879004103 PGAP1-like protein; Region: PGAP1; pfam07819 167879004104 SeqA protein; Region: SeqA; pfam03925 167879004105 phosphoglucomutase; Validated; Region: PRK07564 167879004106 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 167879004107 active site 167879004108 substrate binding site [chemical binding]; other site 167879004109 metal binding site [ion binding]; metal-binding site 167879004110 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 167879004111 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 167879004112 tetramer interface [polypeptide binding]; other site 167879004113 TPP-binding site [chemical binding]; other site 167879004114 heterodimer interface [polypeptide binding]; other site 167879004115 phosphorylation loop region [posttranslational modification] 167879004116 3-methyl-2-oxobutanate dehydrogenase; Provisional; Region: PTZ00182 167879004117 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 167879004118 alpha subunit interface [polypeptide binding]; other site 167879004119 TPP binding site [chemical binding]; other site 167879004120 heterodimer interface [polypeptide binding]; other site 167879004121 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 167879004122 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 167879004123 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 167879004124 E3 interaction surface; other site 167879004125 lipoyl attachment site [posttranslational modification]; other site 167879004126 e3 binding domain; Region: E3_binding; pfam02817 167879004127 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 167879004128 Peptidase family M2 Angiotensin converting enzyme (ACE); Region: M2_ACE; cd06461 167879004129 active site 167879004130 Zn binding site [ion binding]; other site 167879004131 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 167879004132 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 167879004133 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 167879004134 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 167879004135 ATP binding site [chemical binding]; other site 167879004136 Mg++ binding site [ion binding]; other site 167879004137 motif III; other site 167879004138 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 167879004139 nucleotide binding region [chemical binding]; other site 167879004140 ATP-binding site [chemical binding]; other site 167879004141 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879004142 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879004143 metal binding site [ion binding]; metal-binding site 167879004144 active site 167879004145 I-site; other site 167879004146 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 167879004147 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 167879004148 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 167879004149 TrkA-N domain; Region: TrkA_N; pfam02254 167879004150 TrkA-C domain; Region: TrkA_C; pfam02080 167879004151 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 167879004152 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 167879004153 active site 167879004154 nucleophile elbow; other site 167879004155 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 167879004156 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 167879004157 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 167879004158 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 167879004159 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 167879004160 active site 167879004161 catalytic residues [active] 167879004162 metal binding site [ion binding]; metal-binding site 167879004163 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 167879004164 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 167879004165 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 167879004166 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 167879004167 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 167879004168 carboxyltransferase (CT) interaction site; other site 167879004169 biotinylation site [posttranslational modification]; other site 167879004170 enoyl-CoA hydratase; Provisional; Region: PRK05995 167879004171 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 167879004172 substrate binding site [chemical binding]; other site 167879004173 oxyanion hole (OAH) forming residues; other site 167879004174 trimer interface [polypeptide binding]; other site 167879004175 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 167879004176 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 167879004177 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 167879004178 isovaleryl-CoA dehydrogenase; Region: PLN02519 167879004179 substrate binding site [chemical binding]; other site 167879004180 FAD binding site [chemical binding]; other site 167879004181 catalytic base [active] 167879004182 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 167879004183 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 167879004184 DNA binding residues [nucleotide binding] 167879004185 putative dimer interface [polypeptide binding]; other site 167879004186 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 167879004187 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 167879004188 dimer interface [polypeptide binding]; other site 167879004189 active site 167879004190 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 167879004191 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 167879004192 substrate binding site [chemical binding]; other site 167879004193 oxyanion hole (OAH) forming residues; other site 167879004194 trimer interface [polypeptide binding]; other site 167879004195 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 167879004196 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 167879004197 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 167879004198 NAD(P) binding site [chemical binding]; other site 167879004199 active site 167879004200 Isochorismatase family; Region: Isochorismatase; pfam00857 167879004201 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; cd00431 167879004202 catalytic triad [active] 167879004203 conserved cis-peptide bond; other site 167879004204 Cupin; Region: Cupin_6; pfam12852 167879004205 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 167879004206 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 167879004207 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 167879004208 non-specific DNA binding site [nucleotide binding]; other site 167879004209 salt bridge; other site 167879004210 sequence-specific DNA binding site [nucleotide binding]; other site 167879004211 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 167879004212 DNA binding residues [nucleotide binding] 167879004213 Response regulator receiver domain; Region: Response_reg; pfam00072 167879004214 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 167879004215 active site 167879004216 phosphorylation site [posttranslational modification] 167879004217 intermolecular recognition site; other site 167879004218 dimerization interface [polypeptide binding]; other site 167879004219 PAS domain S-box; Region: sensory_box; TIGR00229 167879004220 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 167879004221 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; cd00130 167879004222 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 167879004223 putative active site [active] 167879004224 heme pocket [chemical binding]; other site 167879004225 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; cd00130 167879004226 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 167879004227 putative active site [active] 167879004228 heme pocket [chemical binding]; other site 167879004229 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 167879004230 dimer interface [polypeptide binding]; other site 167879004231 phosphorylation site [posttranslational modification] 167879004232 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 167879004233 ATP binding site [chemical binding]; other site 167879004234 Mg2+ binding site [ion binding]; other site 167879004235 G-X-G motif; other site 167879004236 Response regulator receiver domain; Region: Response_reg; pfam00072 167879004237 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 167879004238 active site 167879004239 phosphorylation site [posttranslational modification] 167879004240 intermolecular recognition site; other site 167879004241 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; cd00130 167879004242 PAS fold; Region: PAS_3; pfam08447 167879004243 putative active site [active] 167879004244 heme pocket [chemical binding]; other site 167879004245 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 167879004246 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 167879004247 dimer interface [polypeptide binding]; other site 167879004248 putative CheW interface [polypeptide binding]; other site 167879004249 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 167879004250 dimerization interface [polypeptide binding]; other site 167879004251 PAS fold; Region: PAS_4; pfam08448 167879004252 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; cd00130 167879004253 putative active site [active] 167879004254 heme pocket [chemical binding]; other site 167879004255 PAS domain; Region: PAS_9; pfam13426 167879004256 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; cd00130 167879004257 putative active site [active] 167879004258 heme pocket [chemical binding]; other site 167879004259 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879004260 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879004261 metal binding site [ion binding]; metal-binding site 167879004262 active site 167879004263 I-site; other site 167879004264 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 167879004265 Abortive infection C-terminus; Region: Abi_C; pfam14355 167879004266 Lamin Tail Domain; Region: LTD; pfam00932 167879004267 PEP-CTERM motif; Region: VPEP; pfam07589 167879004268 TniQ; Region: TniQ; pfam06527 167879004269 AAA ATPase domain; Region: AAA_16; pfam13191 167879004270 AAA domain; Region: AAA_22; pfam13401 167879004271 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 167879004272 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 167879004273 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 167879004274 Catalytic site [active] 167879004275 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 167879004276 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 167879004277 active site 167879004278 DNA binding site [nucleotide binding] 167879004279 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 167879004280 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 167879004281 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 167879004282 Cytochrome oxidase complex assembly protein 1; Region: Coa1; pfam08695 167879004283 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 167879004284 Coenzyme A binding pocket [chemical binding]; other site 167879004285 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 167879004286 non-specific DNA binding site [nucleotide binding]; other site 167879004287 salt bridge; other site 167879004288 sequence-specific DNA binding site [nucleotide binding]; other site 167879004289 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 167879004290 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 167879004291 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 167879004292 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 167879004293 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 167879004294 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 167879004295 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 167879004296 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 167879004297 putative active site [active] 167879004298 Zn binding site [ion binding]; other site 167879004299 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 167879004300 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 167879004301 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 167879004302 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 167879004303 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 167879004304 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 167879004305 active site 167879004306 dinuclear metal binding site [ion binding]; other site 167879004307 dimerization interface [polypeptide binding]; other site 167879004308 Domain of unknown function (DUF1707); Region: DUF1707; pfam08044 167879004309 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 167879004310 Protein of unknown function (DUF1697); Region: DUF1697; pfam08002 167879004311 Benzoate membrane transport protein; Region: BenE; pfam03594 167879004312 benzoate transporter; Region: benE; TIGR00843 167879004313 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 167879004314 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 167879004315 non-specific DNA binding site [nucleotide binding]; other site 167879004316 salt bridge; other site 167879004317 sequence-specific DNA binding site [nucleotide binding]; other site 167879004318 Cupin domain; Region: Cupin_2; pfam07883 167879004319 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 167879004320 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 167879004321 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 167879004322 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 167879004323 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 167879004324 C-terminal domain interface [polypeptide binding]; other site 167879004325 GSH binding site (G-site) [chemical binding]; other site 167879004326 dimer interface [polypeptide binding]; other site 167879004327 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 167879004328 N-terminal domain interface [polypeptide binding]; other site 167879004329 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 167879004330 Transcriptional regulator [Transcription]; Region: LysR; COG0583 167879004331 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879004332 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 167879004333 putative effector binding pocket; other site 167879004334 dimerization interface [polypeptide binding]; other site 167879004335 Transcriptional regulator [Transcription]; Region: LysR; COG0583 167879004336 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879004337 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 167879004338 putative effector binding pocket; other site 167879004339 dimerization interface [polypeptide binding]; other site 167879004340 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 167879004341 Uncharacterized conserved protein [Function unknown]; Region: COG2128 167879004342 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 167879004343 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 167879004344 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; pfam08883 167879004345 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 167879004346 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 167879004347 short chain dehydrogenase; Provisional; Region: PRK06500 167879004348 classical (c) SDRs; Region: SDR_c; cd05233 167879004349 NAD(P) binding site [chemical binding]; other site 167879004350 active site 167879004351 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 167879004352 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 167879004353 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 167879004354 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 167879004355 active site 167879004356 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 167879004357 Transposase; Region: HTH_Tnp_1; cl17663 167879004358 putative transposase OrfB; Reviewed; Region: PHA02517 167879004359 HTH-like domain; Region: HTH_21; pfam13276 167879004360 Integrase core domain; Region: rve; pfam00665 167879004361 Integrase core domain; Region: rve_3; pfam13683 167879004362 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 167879004363 putative hydrophobic ligand binding site [chemical binding]; other site 167879004364 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 167879004365 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 167879004366 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 167879004367 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 167879004368 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 167879004369 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 167879004370 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 167879004371 carbohydrate binding site [chemical binding]; other site 167879004372 alpha-1,6-glucosidases, pullulanase-type; Region: pullul_strch; TIGR02103 167879004373 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 167879004374 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 167879004375 Ca binding site [ion binding]; other site 167879004376 active site 167879004377 catalytic site [active] 167879004378 Domain of unknown function (DUF3372); Region: DUF3372; pfam11852 167879004379 Early set domain associated with the catalytic domain of pullulanase-like proteins; Region: E_set_pullulanase_like; cd02861 167879004380 Early set domain associated with the catalytic domain of pullulanase-like proteins; Region: E_set_pullulanase_like; cd02861 167879004381 Early set domain associated with the catalytic domain of pullulanase-like proteins; Region: E_set_pullulanase_like; cd02861 167879004382 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 167879004383 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 167879004384 active site 167879004385 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 167879004386 Major Facilitator Superfamily; Region: MFS_1; pfam07690 167879004387 putative substrate translocation pore; other site 167879004388 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 167879004389 RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner; Region: RNase_H; cl14782 167879004390 RNA/DNA hybrid binding site [nucleotide binding]; other site 167879004391 active site 167879004392 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 167879004393 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 167879004394 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 167879004395 GTP/Mg2+ binding site [chemical binding]; other site 167879004396 G4 box; other site 167879004397 G5 box; other site 167879004398 G1 box; other site 167879004399 Switch I region; other site 167879004400 G2 box; other site 167879004401 G3 box; other site 167879004402 Switch II region; other site 167879004403 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 167879004404 methionine gamma-lyase; Provisional; Region: PRK06234 167879004405 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 167879004406 homodimer interface [polypeptide binding]; other site 167879004407 substrate-cofactor binding pocket; other site 167879004408 pyridoxal 5'-phosphate binding site [chemical binding]; other site 167879004409 catalytic residue [active] 167879004410 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 167879004411 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 167879004412 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 167879004413 Walker A motif; other site 167879004414 ATP binding site [chemical binding]; other site 167879004415 Walker B motif; other site 167879004416 arginine finger; other site 167879004417 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 167879004418 Catalytic domain of Protein Kinases; Region: PKc; cd00180 167879004419 active site 167879004420 ATP binding site [chemical binding]; other site 167879004421 substrate binding site [chemical binding]; other site 167879004422 activation loop (A-loop); other site 167879004423 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 167879004424 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 167879004425 N-terminal plug; other site 167879004426 ligand-binding site [chemical binding]; other site 167879004427 lipoyl synthase; Provisional; Region: PRK05481 167879004428 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 167879004429 FeS/SAM binding site; other site 167879004430 lipoate-protein ligase B; Provisional; Region: PRK14342 167879004431 hypothetical protein; Provisional; Region: PRK04998 167879004432 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 167879004433 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 167879004434 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 167879004435 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 167879004436 rare lipoprotein A; Region: rlpA; TIGR00413 167879004437 Sporulation related domain; Region: SPOR; pfam05036 167879004438 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 167879004439 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 167879004440 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 167879004441 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 167879004442 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 167879004443 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 167879004444 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 167879004445 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 167879004446 active site 167879004447 (T/H)XGH motif; other site 167879004448 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 167879004449 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 167879004450 Lipopolysaccharide-assembly; Region: LptE; cl01125 167879004451 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 167879004452 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 167879004453 HIGH motif; other site 167879004454 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 167879004455 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 167879004456 active site 167879004457 KMSKS motif; other site 167879004458 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 167879004459 tRNA binding surface [nucleotide binding]; other site 167879004460 Protein of unknown function (DUF1451); Region: DUF1451; pfam07295 167879004461 AAA domain; Region: AAA_32; pfam13654 167879004462 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 167879004463 ATP-dependent RNA helicase DeaD; Provisional; Region: PRK11634 167879004464 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 167879004465 ATP binding site [chemical binding]; other site 167879004466 Mg++ binding site [ion binding]; other site 167879004467 motif III; other site 167879004468 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 167879004469 nucleotide binding region [chemical binding]; other site 167879004470 ATP-binding site [chemical binding]; other site 167879004471 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 167879004472 putative RNA binding site [nucleotide binding]; other site 167879004473 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 167879004474 active site 167879004475 TolQ protein; Region: tolQ; TIGR02796 167879004476 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 167879004477 TolR protein; Region: tolR; TIGR02801 167879004478 TolA protein; Region: tolA_full; TIGR02794 167879004479 TolA protein; Region: tolA_full; TIGR02794 167879004480 TolA C-terminal; Region: TolA; pfam06519 167879004481 translocation protein TolB; Provisional; Region: tolB; PRK04792 167879004482 TolB amino-terminal domain; Region: TolB_N; pfam04052 167879004483 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 167879004484 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 167879004485 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 167879004486 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 167879004487 ligand binding site [chemical binding]; other site 167879004488 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 167879004489 Tetratricopeptide repeat; Region: TPR_6; pfam13174 167879004490 quinolinate synthetase; Provisional; Region: PRK09375 167879004491 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; cd00130 167879004492 PAS domain; Region: PAS_9; pfam13426 167879004493 putative active site [active] 167879004494 heme pocket [chemical binding]; other site 167879004495 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879004496 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879004497 metal binding site [ion binding]; metal-binding site 167879004498 active site 167879004499 I-site; other site 167879004500 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 167879004501 Hemerythrin; Region: Hemerythrin; cd12107 167879004502 Fe binding site [ion binding]; other site 167879004503 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879004504 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879004505 metal binding site [ion binding]; metal-binding site 167879004506 active site 167879004507 I-site; other site 167879004508 Hemerythrin; Region: Hemerythrin; cd12107 167879004509 Fe binding site [ion binding]; other site 167879004510 mechanosensitive channel MscS; Provisional; Region: PRK10334 167879004511 Mechanosensitive ion channel; Region: MS_channel; pfam00924 167879004512 Sel1-like repeats; Region: SEL1; smart00671 167879004513 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 167879004514 Sel1 repeat; Region: Sel1; pfam08238 167879004515 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 167879004516 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 167879004517 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 167879004518 dimerization interface [polypeptide binding]; other site 167879004519 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 167879004520 dimer interface [polypeptide binding]; other site 167879004521 phosphorylation site [posttranslational modification] 167879004522 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 167879004523 ATP binding site [chemical binding]; other site 167879004524 Mg2+ binding site [ion binding]; other site 167879004525 G-X-G motif; other site 167879004526 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 167879004527 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 167879004528 active site 167879004529 phosphorylation site [posttranslational modification] 167879004530 intermolecular recognition site; other site 167879004531 dimerization interface [polypeptide binding]; other site 167879004532 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 167879004533 DNA binding site [nucleotide binding] 167879004534 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 167879004535 dimer interface [polypeptide binding]; other site 167879004536 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 167879004537 active site 167879004538 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 167879004539 Sulfate transporter family; Region: Sulfate_transp; pfam00916 167879004540 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 167879004541 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 167879004542 Sulfate transporter family; Region: Sulfate_transp; pfam00916 167879004543 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 167879004544 YcaO domain protein; Region: TIGR03549 167879004545 OsmC-like protein; Region: OsmC; pfam02566 167879004546 YcaO-like family; Region: YcaO; pfam02624 167879004547 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 167879004548 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879004549 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879004550 metal binding site [ion binding]; metal-binding site 167879004551 active site 167879004552 I-site; other site 167879004553 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 167879004554 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 167879004555 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 167879004556 TrkA-N domain; Region: TrkA_N; pfam02254 167879004557 Curli production assembly/transport component CsgG; Region: CsgG; pfam03783 167879004558 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 167879004559 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 167879004560 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 167879004561 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 167879004562 NADP binding site [chemical binding]; other site 167879004563 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879004564 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 167879004565 The C-terminal substrate binding domain of LysR-type transcriptional regulator, HupR, which regulates expression of the heme uptake receptor HupA; contains the type 2 periplasmic binding fold; Region: PBP2_HupR; cd08431 167879004566 putative dimerization interface [polypeptide binding]; other site 167879004567 Predicted membrane protein [Function unknown]; Region: COG2259 167879004568 Pirin-related protein [General function prediction only]; Region: COG1741 167879004569 Pirin; Region: Pirin; pfam02678 167879004570 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 167879004571 Predicted membrane protein [Function unknown]; Region: COG2259 167879004572 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 167879004573 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 167879004574 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 167879004575 putative dimer interface [polypeptide binding]; other site 167879004576 N-terminal domain interface [polypeptide binding]; other site 167879004577 putative substrate binding pocket (H-site) [chemical binding]; other site 167879004578 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 167879004579 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 167879004580 Walker A/P-loop; other site 167879004581 ATP binding site [chemical binding]; other site 167879004582 Q-loop/lid; other site 167879004583 ABC transporter signature motif; other site 167879004584 Walker B; other site 167879004585 D-loop; other site 167879004586 H-loop/switch region; other site 167879004587 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 167879004588 Walker A/P-loop; other site 167879004589 ATP binding site [chemical binding]; other site 167879004590 Q-loop/lid; other site 167879004591 ABC transporter signature motif; other site 167879004592 Walker B; other site 167879004593 D-loop; other site 167879004594 H-loop/switch region; other site 167879004595 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 167879004596 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 167879004597 FMN binding site [chemical binding]; other site 167879004598 active site 167879004599 substrate binding site [chemical binding]; other site 167879004600 catalytic residue [active] 167879004601 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_9; cd07245 167879004602 dimer interface [polypeptide binding]; other site 167879004603 putative metal binding site [ion binding]; other site 167879004604 Transcriptional regulator [Transcription]; Region: LysR; COG0583 167879004605 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879004606 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 167879004607 putative effector binding pocket; other site 167879004608 dimerization interface [polypeptide binding]; other site 167879004609 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation," the...; Region: Lipase_3; cd00519 167879004610 active site flap/lid [active] 167879004611 nucleophilic elbow; other site 167879004612 catalytic triad [active] 167879004613 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 167879004614 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 167879004615 ligand binding site [chemical binding]; other site 167879004616 homodimer interface [polypeptide binding]; other site 167879004617 NAD(P) binding site [chemical binding]; other site 167879004618 trimer interface B [polypeptide binding]; other site 167879004619 trimer interface A [polypeptide binding]; other site 167879004620 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 167879004621 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 167879004622 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 167879004623 PEP-CTERM protein-sorting domain; Region: PEP_exosort; TIGR02595 167879004624 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 167879004625 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 167879004626 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 167879004627 FeS/SAM binding site; other site 167879004628 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 167879004629 putative active site [active] 167879004630 putative catalytic site [active] 167879004631 PEP-CTERM motif; Region: VPEP; pfam07589 167879004632 RNA polymerase sigma factor, TIGR02999 family; Region: Sig-70_X6 167879004633 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 167879004634 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 167879004635 active site 167879004636 ATP binding site [chemical binding]; other site 167879004637 substrate binding site [chemical binding]; other site 167879004638 activation loop (A-loop); other site 167879004639 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 167879004640 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 167879004641 Walker A motif; other site 167879004642 ATP binding site [chemical binding]; other site 167879004643 Walker B motif; other site 167879004644 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 167879004645 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 167879004646 Walker A motif; other site 167879004647 ATP binding site [chemical binding]; other site 167879004648 Walker B motif; other site 167879004649 arginine finger; other site 167879004650 Peptidase family M41; Region: Peptidase_M41; pfam01434 167879004651 TIR domain; Region: TIR_2; pfam13676 167879004652 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 167879004653 Uncharacterized protein family, UPF0114; Region: UPF0114; pfam03350 167879004654 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 167879004655 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 167879004656 Walker A motif; other site 167879004657 ATP binding site [chemical binding]; other site 167879004658 Walker B motif; other site 167879004659 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 167879004660 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 167879004661 Walker A motif; other site 167879004662 ATP binding site [chemical binding]; other site 167879004663 Walker B motif; other site 167879004664 arginine finger; other site 167879004665 Peptidase family M41; Region: Peptidase_M41; pfam01434 167879004666 Domain of unknown function (DUF4062); Region: DUF4062; pfam13271 167879004667 AAA ATPase domain; Region: AAA_16; pfam13191 167879004668 Tetratricopeptide repeat; Region: TPR_12; pfam13424 167879004669 Transposase IS200 like; Region: Y1_Tnp; pfam01797 167879004670 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 167879004671 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 167879004672 Catalytic site [active] 167879004673 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 167879004674 Catalytic domain of Protein Kinases; Region: PKc; cd00180 167879004675 active site 167879004676 ATP binding site [chemical binding]; other site 167879004677 substrate binding site [chemical binding]; other site 167879004678 activation loop (A-loop); other site 167879004679 RNA polymerase sigma factor, TIGR02999 family; Region: Sig-70_X6 167879004680 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 167879004681 active site 167879004682 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 167879004683 FtsX-like permease family; Region: FtsX; pfam02687 167879004684 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 167879004685 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 167879004686 Walker A/P-loop; other site 167879004687 ATP binding site [chemical binding]; other site 167879004688 Q-loop/lid; other site 167879004689 ABC transporter signature motif; other site 167879004690 Walker B; other site 167879004691 D-loop; other site 167879004692 H-loop/switch region; other site 167879004693 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 167879004694 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 167879004695 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 167879004696 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 167879004697 Protein of unknown function (DUF1826); Region: DUF1826; pfam08856 167879004698 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 167879004699 MerC mercury resistance protein; Region: MerC; pfam03203 167879004700 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 167879004701 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 167879004702 active site 167879004703 phosphorylation site [posttranslational modification] 167879004704 intermolecular recognition site; other site 167879004705 dimerization interface [polypeptide binding]; other site 167879004706 LytTr DNA-binding domain; Region: LytTR; smart00850 167879004707 Histidine kinase; Region: His_kinase; pfam06580 167879004708 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; cl00075 167879004709 ATP binding site [chemical binding]; other site 167879004710 Mg2+ binding site [ion binding]; other site 167879004711 G-X-G motif; other site 167879004712 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 167879004713 Acyltransferase family; Region: Acyl_transf_3; pfam01757 167879004714 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 167879004715 dimerization interface [polypeptide binding]; other site 167879004716 active site 167879004717 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 167879004718 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 167879004719 dimer interface [polypeptide binding]; other site 167879004720 phosphorylation site [posttranslational modification] 167879004721 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 167879004722 ATP binding site [chemical binding]; other site 167879004723 Mg2+ binding site [ion binding]; other site 167879004724 G-X-G motif; other site 167879004725 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 167879004726 active site 167879004727 phosphorylation site [posttranslational modification] 167879004728 intermolecular recognition site; other site 167879004729 dimerization interface [polypeptide binding]; other site 167879004730 TMAO reductase system periplasmic protein TorT; Region: TMAO_TorT; TIGR02955 167879004731 TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria; Region: PBP1_TorT-like; cd06306 167879004732 putative ligand binding site [chemical binding]; other site 167879004733 DNA-binding transcriptional regulator TorR; Provisional; Region: PRK10766 167879004734 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 167879004735 active site 167879004736 phosphorylation site [posttranslational modification] 167879004737 intermolecular recognition site; other site 167879004738 dimerization interface [polypeptide binding]; other site 167879004739 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 167879004740 DNA binding site [nucleotide binding] 167879004741 conserved hypothetical protein, proteobacterial; Region: gcw_chp; TIGR02001 167879004742 Periplasmic nitrate reductase protein NapE; Region: NapE; pfam06796 167879004743 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 167879004744 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 167879004745 trimethylamine N-oxide reductase I catalytic subunit; Provisional; Region: PRK15102 167879004746 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 167879004747 molybdopterin cofactor binding site [chemical binding]; other site 167879004748 substrate binding site [chemical binding]; other site 167879004749 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 167879004750 molybdopterin cofactor binding site; other site 167879004751 chaperone protein TorD; Validated; Region: torD; PRK04976 167879004752 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cd00190 167879004753 cleavage site 167879004754 active site 167879004755 substrate binding sites [chemical binding]; other site 167879004756 Outer membrane efflux protein; Region: OEP; pfam02321 167879004757 Outer membrane efflux protein; Region: OEP; pfam02321 167879004758 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 167879004759 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 167879004760 HlyD family secretion protein; Region: HlyD_3; pfam13437 167879004761 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 167879004762 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 167879004763 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 167879004764 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 167879004765 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 167879004766 putative metal binding site [ion binding]; other site 167879004767 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_6; cd07242 167879004768 putative dimer interface [polypeptide binding]; other site 167879004769 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 167879004770 ligand binding site [chemical binding]; other site 167879004771 Zn binding site [ion binding]; other site 167879004772 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 167879004773 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 167879004774 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 167879004775 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 167879004776 HlyD family secretion protein; Region: HlyD_3; pfam13437 167879004777 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 167879004778 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 167879004779 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 167879004780 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 167879004781 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 167879004782 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 167879004783 active site 167879004784 phosphorylation site [posttranslational modification] 167879004785 intermolecular recognition site; other site 167879004786 dimerization interface [polypeptide binding]; other site 167879004787 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 167879004788 DNA binding site [nucleotide binding] 167879004789 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 167879004790 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 167879004791 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 167879004792 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 167879004793 Filamin/ABP280 repeat; Region: Filamin; pfam00630 167879004794 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 167879004795 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 167879004796 N-terminal plug; other site 167879004797 ligand-binding site [chemical binding]; other site 167879004798 Cytochrome c; Region: Cytochrom_C; cl11414 167879004799 Cytochrome c; Region: Cytochrom_C; cl11414 167879004800 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 167879004801 GtrA-like protein; Region: GtrA; pfam04138 167879004802 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 167879004803 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 167879004804 Ligand binding site; other site 167879004805 Putative Catalytic site; other site 167879004806 DXD motif; other site 167879004807 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 167879004808 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 167879004809 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 167879004810 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 167879004811 active site 167879004812 phosphorylation site [posttranslational modification] 167879004813 intermolecular recognition site; other site 167879004814 dimerization interface [polypeptide binding]; other site 167879004815 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 167879004816 DNA binding site [nucleotide binding] 167879004817 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 167879004818 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 167879004819 dimer interface [polypeptide binding]; other site 167879004820 phosphorylation site [posttranslational modification] 167879004821 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 167879004822 ATP binding site [chemical binding]; other site 167879004823 Mg2+ binding site [ion binding]; other site 167879004824 G-X-G motif; other site 167879004825 NRDE protein; Region: NRDE; cl01315 167879004826 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 167879004827 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 167879004828 isoaspartyl dipeptidase; Provisional; Region: PRK10657 167879004829 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 167879004830 active site 167879004831 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 167879004832 proposed catalytic triad [active] 167879004833 active site nucleophile [active] 167879004834 cyanophycin synthetase; Provisional; Region: PRK14016 167879004835 ATP-grasp domain; Region: ATP-grasp_4; cl17255 167879004836 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 167879004837 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 167879004838 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 167879004839 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 167879004840 IHF dimer interface [polypeptide binding]; other site 167879004841 IHF - DNA interface [nucleotide binding]; other site 167879004842 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 167879004843 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 167879004844 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 167879004845 PAS domain; Region: PAS_9; pfam13426 167879004846 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 167879004847 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 167879004848 Walker A motif; other site 167879004849 ATP binding site [chemical binding]; other site 167879004850 Walker B motif; other site 167879004851 arginine finger; other site 167879004852 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 167879004853 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 167879004854 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 167879004855 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 167879004856 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 167879004857 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 167879004858 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 167879004859 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 167879004860 Walker A/P-loop; other site 167879004861 ATP binding site [chemical binding]; other site 167879004862 Q-loop/lid; other site 167879004863 ABC transporter signature motif; other site 167879004864 Walker B; other site 167879004865 D-loop; other site 167879004866 H-loop/switch region; other site 167879004867 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 167879004868 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 167879004869 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 167879004870 Walker A/P-loop; other site 167879004871 ATP binding site [chemical binding]; other site 167879004872 Q-loop/lid; other site 167879004873 ABC transporter signature motif; other site 167879004874 Walker B; other site 167879004875 D-loop; other site 167879004876 H-loop/switch region; other site 167879004877 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 167879004878 PAS fold; Region: PAS_7; pfam12860 167879004879 PAS domain; Region: PAS; smart00091 167879004880 PAS fold; Region: PAS_7; pfam12860 167879004881 PAS fold; Region: PAS_4; pfam08448 167879004882 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 167879004883 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 167879004884 dimer interface [polypeptide binding]; other site 167879004885 phosphorylation site [posttranslational modification] 167879004886 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 167879004887 ATP binding site [chemical binding]; other site 167879004888 Mg2+ binding site [ion binding]; other site 167879004889 G-X-G motif; other site 167879004890 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 167879004891 Response regulator receiver domain; Region: Response_reg; pfam00072 167879004892 active site 167879004893 phosphorylation site [posttranslational modification] 167879004894 intermolecular recognition site; other site 167879004895 dimerization interface [polypeptide binding]; other site 167879004896 Uncharacterized conserved protein [Function unknown]; Region: COG3287 167879004897 FIST N domain; Region: FIST; pfam08495 167879004898 FIST C domain; Region: FIST_C; pfam10442 167879004899 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 167879004900 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 167879004901 4Fe-4S binding domain; Region: Fer4_5; pfam12801 167879004902 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 167879004903 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 167879004904 NAD(P) binding site [chemical binding]; other site 167879004905 catalytic residues [active] 167879004906 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 167879004907 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 167879004908 dimer interface [polypeptide binding]; other site 167879004909 Trp docking motif [polypeptide binding]; other site 167879004910 active site 167879004911 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 167879004912 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 167879004913 substrate binding pocket [chemical binding]; other site 167879004914 membrane-bound complex binding site; other site 167879004915 hinge residues; other site 167879004916 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 167879004917 Cytochrome c; Region: Cytochrom_C; pfam00034 167879004918 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 167879004919 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 167879004920 ligand binding site [chemical binding]; other site 167879004921 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 167879004922 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 167879004923 structural tetrad; other site 167879004924 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 167879004925 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 167879004926 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 167879004927 Walker A/P-loop; other site 167879004928 ATP binding site [chemical binding]; other site 167879004929 Q-loop/lid; other site 167879004930 ABC transporter signature motif; other site 167879004931 Walker B; other site 167879004932 D-loop; other site 167879004933 H-loop/switch region; other site 167879004934 alcohol ABC transporter, permease protein; Region: phenyl_ABC_PedC; TIGR03861 167879004935 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 167879004936 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 167879004937 Coenzyme A binding pocket [chemical binding]; other site 167879004938 putative transposase OrfB; Reviewed; Region: PHA02517 167879004939 HTH-like domain; Region: HTH_21; pfam13276 167879004940 Integrase core domain; Region: rve; pfam00665 167879004941 Integrase core domain; Region: rve_3; pfam13683 167879004942 Cna protein B-type domain; Region: Cna_B_2; pfam13715 167879004943 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 167879004944 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 167879004945 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 167879004946 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 167879004947 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 167879004948 active site 167879004949 FMN binding site [chemical binding]; other site 167879004950 substrate binding site [chemical binding]; other site 167879004951 3Fe-4S cluster binding site [ion binding]; other site 167879004952 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 167879004953 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 167879004954 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 167879004955 C-terminal domain interface [polypeptide binding]; other site 167879004956 GSH binding site (G-site) [chemical binding]; other site 167879004957 dimer interface [polypeptide binding]; other site 167879004958 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 167879004959 N-terminal domain interface [polypeptide binding]; other site 167879004960 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 167879004961 Transcriptional regulator [Transcription]; Region: LysR; COG0583 167879004962 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879004963 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 167879004964 dimerization interface [polypeptide binding]; other site 167879004965 Transcriptional regulator [Transcription]; Region: LysR; COG0583 167879004966 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879004967 The C-terminal substrate binding domain of LysR-type transcriptional regulators, YofA and SoxR, contains the type 2 periplasmic binding fold; Region: PBP2_YofA_SoxR_like; cd08442 167879004968 putative dimerization interface [polypeptide binding]; other site 167879004969 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 167879004970 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 167879004971 Major Facilitator Superfamily; Region: MFS_1; pfam07690 167879004972 putative substrate translocation pore; other site 167879004973 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 167879004974 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 167879004975 putative C-terminal domain interface [polypeptide binding]; other site 167879004976 putative GSH binding site (G-site) [chemical binding]; other site 167879004977 putative dimer interface [polypeptide binding]; other site 167879004978 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 167879004979 dimer interface [polypeptide binding]; other site 167879004980 N-terminal domain interface [polypeptide binding]; other site 167879004981 putative substrate binding pocket (H-site) [chemical binding]; other site 167879004982 Excalibur calcium-binding domain; Region: Excalibur; pfam05901 167879004983 Cupin domain; Region: Cupin_2; pfam07883 167879004984 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 167879004985 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 167879004986 DNA binding residues [nucleotide binding] 167879004987 dimer interface [polypeptide binding]; other site 167879004988 copper binding site [ion binding]; other site 167879004989 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 167879004990 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 167879004991 metal-binding site [ion binding] 167879004992 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 167879004993 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 167879004994 metal-binding site [ion binding] 167879004995 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 167879004996 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 167879004997 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits of...; Region: NorE_like; cd02862 167879004998 Subunit I/III interface [polypeptide binding]; other site 167879004999 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 167879005000 GAF domain; Region: GAF; pfam01590 167879005001 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 167879005002 Walker A motif; other site 167879005003 ATP binding site [chemical binding]; other site 167879005004 Walker B motif; other site 167879005005 arginine finger; other site 167879005006 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 167879005007 Cytochrome c; Region: Cytochrom_C; cl11414 167879005008 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 167879005009 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 167879005010 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 167879005011 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 167879005012 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 167879005013 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 167879005014 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 167879005015 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 167879005016 N-terminal plug; other site 167879005017 ligand-binding site [chemical binding]; other site 167879005018 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 167879005019 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 167879005020 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 167879005021 dimer interface [polypeptide binding]; other site 167879005022 conserved gate region; other site 167879005023 putative PBP binding loops; other site 167879005024 ABC-ATPase subunit interface; other site 167879005025 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 167879005026 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 167879005027 Walker A/P-loop; other site 167879005028 ATP binding site [chemical binding]; other site 167879005029 Q-loop/lid; other site 167879005030 ABC transporter signature motif; other site 167879005031 Walker B; other site 167879005032 D-loop; other site 167879005033 H-loop/switch region; other site 167879005034 Gram-negative porin; Region: Porin_4; pfam13609 167879005035 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 167879005036 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 167879005037 active site 167879005038 phosphorylation site [posttranslational modification] 167879005039 intermolecular recognition site; other site 167879005040 dimerization interface [polypeptide binding]; other site 167879005041 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 167879005042 DNA binding residues [nucleotide binding] 167879005043 dimerization interface [polypeptide binding]; other site 167879005044 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; cd00130 167879005045 putative active site [active] 167879005046 heme pocket [chemical binding]; other site 167879005047 PAS fold; Region: PAS_4; pfam08448 167879005048 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879005049 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879005050 metal binding site [ion binding]; metal-binding site 167879005051 active site 167879005052 I-site; other site 167879005053 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 167879005054 Mechanosensitive ion channel; Region: MS_channel; pfam00924 167879005055 Nitrate and nitrite sensing; Region: NIT; pfam08376 167879005056 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 167879005057 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 167879005058 dimer interface [polypeptide binding]; other site 167879005059 putative CheW interface [polypeptide binding]; other site 167879005060 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 167879005061 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 167879005062 DNA binding residues [nucleotide binding] 167879005063 Response regulator receiver domain; Region: Response_reg; pfam00072 167879005064 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 167879005065 active site 167879005066 phosphorylation site [posttranslational modification] 167879005067 intermolecular recognition site; other site 167879005068 dimerization interface [polypeptide binding]; other site 167879005069 PAS domain; Region: PAS_9; pfam13426 167879005070 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; cd00130 167879005071 putative active site [active] 167879005072 heme pocket [chemical binding]; other site 167879005073 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; cd00130 167879005074 PAS fold; Region: PAS_3; pfam08447 167879005075 putative active site [active] 167879005076 heme pocket [chemical binding]; other site 167879005077 PAS fold; Region: PAS_4; pfam08448 167879005078 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 167879005079 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; cd00130 167879005080 putative active site [active] 167879005081 heme pocket [chemical binding]; other site 167879005082 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 167879005083 dimer interface [polypeptide binding]; other site 167879005084 phosphorylation site [posttranslational modification] 167879005085 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 167879005086 ATP binding site [chemical binding]; other site 167879005087 Mg2+ binding site [ion binding]; other site 167879005088 G-X-G motif; other site 167879005089 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 167879005090 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 167879005091 active site 167879005092 phosphorylation site [posttranslational modification] 167879005093 intermolecular recognition site; other site 167879005094 dimerization interface [polypeptide binding]; other site 167879005095 Hemerythrin; Region: Hemerythrin; cd12107 167879005096 Fe binding site [ion binding]; other site 167879005097 Response regulator receiver domain; Region: Response_reg; pfam00072 167879005098 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 167879005099 active site 167879005100 phosphorylation site [posttranslational modification] 167879005101 intermolecular recognition site; other site 167879005102 dimerization interface [polypeptide binding]; other site 167879005103 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 167879005104 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 167879005105 Protein of unknown function (DUF3240); Region: DUF3240; pfam11582 167879005106 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 167879005107 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 167879005108 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 167879005109 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 167879005110 DNA binding residues [nucleotide binding] 167879005111 dimerization interface [polypeptide binding]; other site 167879005112 enoyl-CoA hydratase; Validated; Region: PRK08139 167879005113 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 167879005114 substrate binding site [chemical binding]; other site 167879005115 oxyanion hole (OAH) forming residues; other site 167879005116 trimer interface [polypeptide binding]; other site 167879005117 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 167879005118 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 167879005119 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; cd00130 167879005120 putative active site [active] 167879005121 heme pocket [chemical binding]; other site 167879005122 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 167879005123 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; cd00130 167879005124 putative active site [active] 167879005125 heme pocket [chemical binding]; other site 167879005126 PAS domain; Region: PAS_9; pfam13426 167879005127 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; cd00130 167879005128 putative active site [active] 167879005129 heme pocket [chemical binding]; other site 167879005130 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879005131 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879005132 metal binding site [ion binding]; metal-binding site 167879005133 active site 167879005134 I-site; other site 167879005135 FOG: CBS domain [General function prediction only]; Region: COG0517 167879005136 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_17; cd04630 167879005137 Nitrogen regulatory protein P-II; Region: P-II; smart00938 167879005138 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 167879005139 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 167879005140 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 167879005141 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 167879005142 pyridoxal 5'-phosphate binding site [chemical binding]; other site 167879005143 catalytic residue [active] 167879005144 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 167879005145 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 167879005146 DNA binding residues [nucleotide binding] 167879005147 dimer interface [polypeptide binding]; other site 167879005148 putative metal binding site [ion binding]; other site 167879005149 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 167879005150 Outer membrane efflux protein; Region: OEP; pfam02321 167879005151 Outer membrane efflux protein; Region: OEP; pfam02321 167879005152 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 167879005153 carboxyltransferase (CT) interaction site; other site 167879005154 biotinylation site [posttranslational modification]; other site 167879005155 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 167879005156 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 167879005157 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 167879005158 dimerization interface [polypeptide binding]; other site 167879005159 substrate binding site [chemical binding]; other site 167879005160 active site 167879005161 calcium binding site [ion binding]; other site 167879005162 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 167879005163 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 167879005164 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 167879005165 HlyD family secretion protein; Region: HlyD_3; pfam13437 167879005166 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 167879005167 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; cd00016 167879005168 active site 167879005169 dimer interface [polypeptide binding]; other site 167879005170 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 167879005171 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 167879005172 putative metal binding site [ion binding]; other site 167879005173 Endonuclease/Exonuclease/phosphatase family; Region: Exo_endo_phos; pfam03372 167879005174 Gpi16 subunit, GPI transamidase component; Region: Gpi16; pfam04113 167879005175 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 167879005176 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 167879005177 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 167879005178 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 167879005179 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 167879005180 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 167879005181 active site 167879005182 catalytic motif [active] 167879005183 Zn binding site [ion binding]; other site 167879005184 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 167879005185 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 167879005186 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 167879005187 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 167879005188 thymidine kinase; Provisional; Region: PRK04296 167879005189 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 167879005190 intersubunit interface [polypeptide binding]; other site 167879005191 active site 167879005192 catalytic residue [active] 167879005193 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 167879005194 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 167879005195 Nucleoside recognition; Region: Gate; pfam07670 167879005196 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 167879005197 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 167879005198 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 167879005199 ATP-binding site [chemical binding]; other site 167879005200 Sugar specificity; other site 167879005201 Pyrimidine base specificity; other site 167879005202 phosphopentomutase; Provisional; Region: PRK05362 167879005203 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 167879005204 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 167879005205 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 167879005206 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 167879005207 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 167879005208 adenosine deaminase; Provisional; Region: PRK09358 167879005209 active site 167879005210 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 167879005211 putative catalytic site [active] 167879005212 putative metal binding site [ion binding]; other site 167879005213 putative phosphate binding site [ion binding]; other site 167879005214 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 167879005215 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 167879005216 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 167879005217 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 167879005218 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 167879005219 putative active site [active] 167879005220 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 167879005221 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 167879005222 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 167879005223 universal stress protein UspE; Provisional; Region: PRK11175 167879005224 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 167879005225 Ligand Binding Site [chemical binding]; other site 167879005226 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 167879005227 Ligand Binding Site [chemical binding]; other site 167879005228 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 167879005229 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 167879005230 ligand binding site [chemical binding]; other site 167879005231 flexible hinge region; other site 167879005232 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 167879005233 putative switch regulator; other site 167879005234 non-specific DNA interactions [nucleotide binding]; other site 167879005235 DNA binding site [nucleotide binding] 167879005236 sequence specific DNA binding site [nucleotide binding]; other site 167879005237 putative cAMP binding site [chemical binding]; other site 167879005238 Family description; Region: DsbD_2; pfam13386 167879005239 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 167879005240 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 167879005241 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 167879005242 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 167879005243 metal-binding site [ion binding] 167879005244 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 167879005245 Soluble P-type ATPase [General function prediction only]; Region: COG4087 167879005246 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 167879005247 FixH; Region: FixH; pfam05751 167879005248 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 167879005249 Cytochrome c; Region: Cytochrom_C; pfam00034 167879005250 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 167879005251 Cbb3-type cytochrome oxidase component FixQ; Region: FixQ; pfam05545 167879005252 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 167879005253 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 167879005254 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 167879005255 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 167879005256 Low-spin heme binding site [chemical binding]; other site 167879005257 Putative water exit pathway; other site 167879005258 Binuclear center (active site) [active] 167879005259 Putative proton exit pathway; other site 167879005260 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 167879005261 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 167879005262 ligand binding site [chemical binding]; other site 167879005263 flexible hinge region; other site 167879005264 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 167879005265 putative switch regulator; other site 167879005266 non-specific DNA interactions [nucleotide binding]; other site 167879005267 DNA binding site [nucleotide binding] 167879005268 sequence specific DNA binding site [nucleotide binding]; other site 167879005269 putative cAMP binding site [chemical binding]; other site 167879005270 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 167879005271 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 167879005272 N-acetyl-D-glucosamine binding site [chemical binding]; other site 167879005273 catalytic residue [active] 167879005274 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 167879005275 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 167879005276 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 167879005277 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 167879005278 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 167879005279 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 167879005280 Methyltransferase domain; Region: Methyltransf_23; pfam13489 167879005281 Uncharacterized conserved protein [Function unknown]; Region: COG0327 167879005282 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 167879005283 Uncharacterized conserved protein [Function unknown]; Region: COG1434 167879005284 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 167879005285 putative active site [active] 167879005286 BCCT family transporter; Region: BCCT; pfam02028 167879005287 aspartate kinase III; Validated; Region: PRK09084 167879005288 AAK_AKiii-LysC-EC: Amino Acid Kinase Superfamily (AAK), AKiii-LysC-EC: this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKIII. AKIII is a monofunctional class enzyme (LysC) found in some...; Region: AAK_AKiii-LysC-EC; cd04258 167879005289 nucleotide binding site [chemical binding]; other site 167879005290 putative catalytic residues [active] 167879005291 aspartate binding site [chemical binding]; other site 167879005292 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_1; cd04932 167879005293 lysine allosteric regulatory site; other site 167879005294 dimer interface [polypeptide binding]; other site 167879005295 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 167879005296 dimer interface [polypeptide binding]; other site 167879005297 Transcriptional regulators [Transcription]; Region: MarR; COG1846 167879005298 MarR family; Region: MarR; pfam01047 167879005299 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 167879005300 catalytic residues [active] 167879005301 dimer interface [polypeptide binding]; other site 167879005302 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 167879005303 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 167879005304 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 167879005305 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 167879005306 transmembrane helices; other site 167879005307 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 167879005308 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 167879005309 eyelet of channel; other site 167879005310 trimer interface [polypeptide binding]; other site 167879005311 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 167879005312 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 167879005313 dimer interface [polypeptide binding]; other site 167879005314 phosphorylation site [posttranslational modification] 167879005315 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 167879005316 ATP binding site [chemical binding]; other site 167879005317 Mg2+ binding site [ion binding]; other site 167879005318 G-X-G motif; other site 167879005319 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 167879005320 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 167879005321 active site 167879005322 phosphorylation site [posttranslational modification] 167879005323 intermolecular recognition site; other site 167879005324 dimerization interface [polypeptide binding]; other site 167879005325 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 167879005326 Walker A motif; other site 167879005327 ATP binding site [chemical binding]; other site 167879005328 Walker B motif; other site 167879005329 arginine finger; other site 167879005330 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 167879005331 exonuclease I; Provisional; Region: sbcB; PRK11779 167879005332 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 167879005333 active site 167879005334 catalytic site [active] 167879005335 substrate binding site [chemical binding]; other site 167879005336 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 167879005337 integrase; Provisional; Region: PRK09692 167879005338 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 167879005339 active site 167879005340 Int/Topo IB signature motif; other site 167879005341 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 167879005342 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 167879005343 succinic semialdehyde dehydrogenase; Region: PLN02278 167879005344 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 167879005345 tetramerization interface [polypeptide binding]; other site 167879005346 NAD(P) binding site [chemical binding]; other site 167879005347 catalytic residues [active] 167879005348 aminotransferase; Provisional; Region: PRK06105 167879005349 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 167879005350 inhibitor-cofactor binding pocket; inhibition site 167879005351 pyridoxal 5'-phosphate binding site [chemical binding]; other site 167879005352 catalytic residue [active] 167879005353 Protein of unknown function (DUF3422); Region: DUF3422; cl02073 167879005354 Protein of unknown function (DUF3422); Region: DUF3422; cl02073 167879005355 conserved hypothetical protein, proteobacterial; Region: gcw_chp; TIGR02001 167879005356 amino acid transporter; Region: 2A0306; TIGR00909 167879005357 Predicted amidohydrolase [General function prediction only]; Region: COG0388 167879005358 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 167879005359 active site 167879005360 catalytic triad [active] 167879005361 dimer interface [polypeptide binding]; other site 167879005362 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 167879005363 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 167879005364 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 167879005365 Histidine kinase; Region: HisKA_3; pfam07730 167879005366 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 167879005367 ATP binding site [chemical binding]; other site 167879005368 Mg2+ binding site [ion binding]; other site 167879005369 G-X-G motif; other site 167879005370 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 167879005371 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 167879005372 active site 167879005373 phosphorylation site [posttranslational modification] 167879005374 intermolecular recognition site; other site 167879005375 dimerization interface [polypeptide binding]; other site 167879005376 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 167879005377 DNA binding residues [nucleotide binding] 167879005378 dimerization interface [polypeptide binding]; other site 167879005379 Protein of unknown function (DUF1214); Region: DUF1214; pfam06742 167879005380 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 167879005381 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 167879005382 MOSC domain; Region: MOSC; pfam03473 167879005383 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 167879005384 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cd00322 167879005385 FAD binding pocket [chemical binding]; other site 167879005386 conserved FAD binding motif [chemical binding]; other site 167879005387 phosphate binding motif [ion binding]; other site 167879005388 beta-alpha-beta structure motif; other site 167879005389 NAD binding pocket [chemical binding]; other site 167879005390 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 167879005391 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 167879005392 catalytic loop [active] 167879005393 iron binding site [ion binding]; other site 167879005394 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 167879005395 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 167879005396 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 167879005397 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 167879005398 dimer interface [polypeptide binding]; other site 167879005399 conserved gate region; other site 167879005400 putative PBP binding loops; other site 167879005401 ABC-ATPase subunit interface; other site 167879005402 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 167879005403 dimer interface [polypeptide binding]; other site 167879005404 conserved gate region; other site 167879005405 putative PBP binding loops; other site 167879005406 ABC-ATPase subunit interface; other site 167879005407 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 167879005408 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 167879005409 Walker A/P-loop; other site 167879005410 ATP binding site [chemical binding]; other site 167879005411 Q-loop/lid; other site 167879005412 ABC transporter signature motif; other site 167879005413 Walker B; other site 167879005414 D-loop; other site 167879005415 H-loop/switch region; other site 167879005416 TOBE domain; Region: TOBE_2; pfam08402 167879005417 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 167879005418 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 167879005419 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 167879005420 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 167879005421 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 167879005422 Major Facilitator Superfamily; Region: MFS_1; pfam07690 167879005423 putative substrate translocation pore; other site 167879005424 acetylornithine deacetylase; Provisional; Region: PRK07522 167879005425 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 167879005426 metal binding site [ion binding]; metal-binding site 167879005427 putative dimer interface [polypeptide binding]; other site 167879005428 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 167879005429 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 167879005430 homotrimer interaction site [polypeptide binding]; other site 167879005431 putative active site [active] 167879005432 4-hydroxyphenylacetate 3-hydroxylase N terminal; Region: HpaB_N; pfam11794 167879005433 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 167879005434 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 167879005435 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 167879005436 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 167879005437 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 167879005438 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 167879005439 dimerization interface [polypeptide binding]; other site 167879005440 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 167879005441 dimer interface [polypeptide binding]; other site 167879005442 putative CheW interface [polypeptide binding]; other site 167879005443 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 167879005444 Malic enzyme, N-terminal domain; Region: malic; pfam00390 167879005445 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 167879005446 putative NAD(P) binding site [chemical binding]; other site 167879005447 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 167879005448 Aspartase; Region: Aspartase; cd01357 167879005449 active sites [active] 167879005450 tetramer interface [polypeptide binding]; other site 167879005451 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 167879005452 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 167879005453 NAD(P) binding site [chemical binding]; other site 167879005454 catalytic residues [active] 167879005455 hypothetical protein; Provisional; Region: PRK07036 167879005456 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 167879005457 inhibitor-cofactor binding pocket; inhibition site 167879005458 pyridoxal 5'-phosphate binding site [chemical binding]; other site 167879005459 catalytic residue [active] 167879005460 Transcriptional regulator [Transcription]; Region: LysR; COG0583 167879005461 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879005462 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 167879005463 putative substrate binding pocket [chemical binding]; other site 167879005464 dimerization interface [polypeptide binding]; other site 167879005465 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 167879005466 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a...; Region: TRX_Fd_NuoE_FDH_gamma; cd03081 167879005467 putative dimer interface [polypeptide binding]; other site 167879005468 [2Fe-2S] cluster binding site [ion binding]; other site 167879005469 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 167879005470 putative dimer interface [polypeptide binding]; other site 167879005471 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 167879005472 SLBB domain; Region: SLBB; pfam10531 167879005473 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 167879005474 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 167879005475 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 167879005476 catalytic loop [active] 167879005477 iron binding site [ion binding]; other site 167879005478 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 167879005479 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 167879005480 [4Fe-4S] binding site [ion binding]; other site 167879005481 molybdopterin cofactor binding site; other site 167879005482 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 167879005483 molybdopterin cofactor binding site; other site 167879005484 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 167879005485 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 167879005486 Vesicle transport v-SNARE protein N-terminus; Region: V-SNARE; pfam05008 167879005487 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 167879005488 histidinol dehydrogenase; Region: hisD; TIGR00069 167879005489 NAD binding site [chemical binding]; other site 167879005490 dimerization interface [polypeptide binding]; other site 167879005491 product binding site; other site 167879005492 substrate binding site [chemical binding]; other site 167879005493 zinc binding site [ion binding]; other site 167879005494 catalytic residues [active] 167879005495 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 167879005496 active site 167879005497 catalytic residues [active] 167879005498 DNA binding site [nucleotide binding] 167879005499 Int/Topo IB signature motif; other site 167879005500 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 167879005501 IHF dimer interface [polypeptide binding]; other site 167879005502 IHF - DNA interface [nucleotide binding]; other site 167879005503 Putative transposase; Region: Y2_Tnp; pfam04986 167879005504 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 167879005505 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 167879005506 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 167879005507 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, 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...; Region: Met_dep_hydrolase_A; cd01299 167879005508 active site 167879005509 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 167879005510 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 167879005511 active site 167879005512 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 167879005513 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 167879005514 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 167879005515 active site 167879005516 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 167879005517 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 167879005518 dimer interface [polypeptide binding]; other site 167879005519 PYR/PP interface [polypeptide binding]; other site 167879005520 TPP binding site [chemical binding]; other site 167879005521 substrate binding site [chemical binding]; other site 167879005522 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 167879005523 TPP-binding site [chemical binding]; other site 167879005524 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 167879005525 Dehydratase family; Region: ILVD_EDD; pfam00920 167879005526 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 167879005527 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 167879005528 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 167879005529 dimerization interface [polypeptide binding]; other site 167879005530 ligand binding site [chemical binding]; other site 167879005531 NADP binding site [chemical binding]; other site 167879005532 catalytic site [active] 167879005533 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 167879005534 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 167879005535 active site 167879005536 substrate binding site [chemical binding]; other site 167879005537 FMN binding site [chemical binding]; other site 167879005538 putative catalytic residues [active] 167879005539 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 167879005540 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 167879005541 DNA binding residues [nucleotide binding] 167879005542 dimerization interface [polypeptide binding]; other site 167879005543 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 167879005544 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 167879005545 ligand binding site [chemical binding]; other site 167879005546 flexible hinge region; other site 167879005547 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 167879005548 putative switch regulator; other site 167879005549 non-specific DNA interactions [nucleotide binding]; other site 167879005550 DNA binding site [nucleotide binding] 167879005551 sequence specific DNA binding site [nucleotide binding]; other site 167879005552 putative cAMP binding site [chemical binding]; other site 167879005553 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 167879005554 Beta-lactamase; Region: Beta-lactamase; pfam00144 167879005555 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 167879005556 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 167879005557 N-terminal plug; other site 167879005558 ligand-binding site [chemical binding]; other site 167879005559 Chain length determinant protein; Region: Wzz; pfam02706 167879005560 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 167879005561 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 167879005562 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 167879005563 Mg++ binding site [ion binding]; other site 167879005564 putative catalytic motif [active] 167879005565 substrate binding site [chemical binding]; other site 167879005566 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 167879005567 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 167879005568 NAD(P) binding site [chemical binding]; other site 167879005569 homodimer interface [polypeptide binding]; other site 167879005570 substrate binding site [chemical binding]; other site 167879005571 active site 167879005572 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 167879005573 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 167879005574 inhibitor-cofactor binding pocket; inhibition site 167879005575 pyridoxal 5'-phosphate binding site [chemical binding]; other site 167879005576 catalytic residue [active] 167879005577 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 167879005578 ligand binding site; other site 167879005579 tetramer interface; other site 167879005580 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 167879005581 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 167879005582 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 167879005583 active site 167879005584 cosubstrate binding site; other site 167879005585 catalytic site [active] 167879005586 pseudaminic acid synthase; Region: PseI; TIGR03586 167879005587 NeuB family; Region: NeuB; pfam03102 167879005588 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 167879005589 NeuB binding interface [polypeptide binding]; other site 167879005590 putative substrate binding site [chemical binding]; other site 167879005591 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 167879005592 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 167879005593 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 167879005594 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 167879005595 active site 167879005596 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 167879005597 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 167879005598 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 167879005599 active site 167879005600 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 167879005601 active site 167879005602 tetramer interface; other site 167879005603 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 167879005604 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 167879005605 active site 167879005606 dimer interface [polypeptide binding]; other site 167879005607 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 167879005608 dimer interface [polypeptide binding]; other site 167879005609 active site 167879005610 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 167879005611 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 167879005612 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 167879005613 Zn2+ binding site [ion binding]; other site 167879005614 Mg2+ binding site [ion binding]; other site 167879005615 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 167879005616 Methyltransferase domain; Region: Methyltransf_23; pfam13489 167879005617 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 167879005618 S-adenosylmethionine binding site [chemical binding]; other site 167879005619 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 167879005620 S-adenosylmethionine binding site [chemical binding]; other site 167879005621 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 167879005622 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 167879005623 substrate binding pocket [chemical binding]; other site 167879005624 membrane-bound complex binding site; other site 167879005625 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 167879005626 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 167879005627 substrate binding pocket [chemical binding]; other site 167879005628 membrane-bound complex binding site; other site 167879005629 hinge residues; other site 167879005630 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 167879005631 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 167879005632 substrate binding pocket [chemical binding]; other site 167879005633 membrane-bound complex binding site; other site 167879005634 hinge residues; other site 167879005635 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879005636 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879005637 metal binding site [ion binding]; metal-binding site 167879005638 active site 167879005639 I-site; other site 167879005640 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 167879005641 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 167879005642 dimer interface [polypeptide binding]; other site 167879005643 anticodon binding site; other site 167879005644 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 167879005645 homodimer interface [polypeptide binding]; other site 167879005646 motif 1; other site 167879005647 active site 167879005648 motif 2; other site 167879005649 GAD domain; Region: GAD; pfam02938 167879005650 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 167879005651 active site 167879005652 motif 3; other site 167879005653 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 167879005654 active site 167879005655 putative DNA-binding cleft [nucleotide binding]; other site 167879005656 dimer interface [polypeptide binding]; other site 167879005657 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 167879005658 RuvA N terminal domain; Region: RuvA_N; pfam01330 167879005659 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 167879005660 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 167879005661 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 167879005662 Walker A motif; other site 167879005663 ATP binding site [chemical binding]; other site 167879005664 Walker B motif; other site 167879005665 arginine finger; other site 167879005666 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 167879005667 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 167879005668 HlyD family secretion protein; Region: HlyD_3; pfam13437 167879005669 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 167879005670 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 167879005671 Walker A/P-loop; other site 167879005672 ATP binding site [chemical binding]; other site 167879005673 Q-loop/lid; other site 167879005674 ABC transporter signature motif; other site 167879005675 Walker B; other site 167879005676 D-loop; other site 167879005677 H-loop/switch region; other site 167879005678 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 167879005679 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 167879005680 FtsX-like permease family; Region: FtsX; pfam02687 167879005681 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 167879005682 FtsX-like permease family; Region: FtsX; pfam02687 167879005683 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 167879005684 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 167879005685 active site 167879005686 phosphorylation site [posttranslational modification] 167879005687 intermolecular recognition site; other site 167879005688 dimerization interface [polypeptide binding]; other site 167879005689 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 167879005690 Walker A motif; other site 167879005691 ATP binding site [chemical binding]; other site 167879005692 Walker B motif; other site 167879005693 arginine finger; other site 167879005694 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 167879005695 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 167879005696 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 167879005697 ATP binding site [chemical binding]; other site 167879005698 Mg2+ binding site [ion binding]; other site 167879005699 G-X-G motif; other site 167879005700 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 167879005701 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 167879005702 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 167879005703 Competence protein; Region: Competence; pfam03772 167879005704 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 167879005705 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 167879005706 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 167879005707 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 167879005708 Walker A/P-loop; other site 167879005709 ATP binding site [chemical binding]; other site 167879005710 Q-loop/lid; other site 167879005711 ABC transporter signature motif; other site 167879005712 Walker B; other site 167879005713 D-loop; other site 167879005714 H-loop/switch region; other site 167879005715 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 167879005716 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 167879005717 Uncharacterized conserved protein [Function unknown]; Region: COG2835 167879005718 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 167879005719 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 167879005720 Ligand binding site; other site 167879005721 oligomer interface; other site 167879005722 SCP-2 sterol transfer family; Region: SCP2; cl01225 167879005723 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 167879005724 Peptidase family U32; Region: Peptidase_U32; pfam01136 167879005725 putative protease; Provisional; Region: PRK15447 167879005726 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 167879005727 Uncharacterized conserved protein [Function unknown]; Region: COG2850 167879005728 Cupin domain; Region: Cupin_2; cl17218 167879005729 Secreted/periplasmic Zn-dependent peptidases, insulinase-like [Posttranslational modification, protein turnover, chaperones]; Region: Ptr; COG1025 167879005730 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 167879005731 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 167879005732 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 167879005733 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 167879005734 RNA binding surface [nucleotide binding]; other site 167879005735 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 167879005736 active site 167879005737 uracil binding [chemical binding]; other site 167879005738 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3492 167879005739 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 167879005740 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 167879005741 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 167879005742 transcription-repair coupling factor; Provisional; Region: PRK10689 167879005743 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 167879005744 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 167879005745 ATP binding site [chemical binding]; other site 167879005746 putative Mg++ binding site [ion binding]; other site 167879005747 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 167879005748 nucleotide binding region [chemical binding]; other site 167879005749 ATP-binding site [chemical binding]; other site 167879005750 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 167879005751 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 167879005752 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 167879005753 catalytic residues [active] 167879005754 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 167879005755 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 167879005756 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 167879005757 Active Sites [active] 167879005758 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 167879005759 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 167879005760 CysD dimerization site [polypeptide binding]; other site 167879005761 G1 box; other site 167879005762 putative GEF interaction site [polypeptide binding]; other site 167879005763 GTP/Mg2+ binding site [chemical binding]; other site 167879005764 Switch I region; other site 167879005765 G2 box; other site 167879005766 G3 box; other site 167879005767 Switch II region; other site 167879005768 G4 box; other site 167879005769 G5 box; other site 167879005770 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 167879005771 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 167879005772 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 167879005773 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 167879005774 TrkA-C domain; Region: TrkA_C; pfam02080 167879005775 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 167879005776 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 167879005777 ligand-binding site [chemical binding]; other site 167879005778 UDP-glucose 4-epimerase; Region: PLN02240 167879005779 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 167879005780 NAD binding site [chemical binding]; other site 167879005781 homodimer interface [polypeptide binding]; other site 167879005782 active site 167879005783 substrate binding site [chemical binding]; other site 167879005784 rhomboid family GlyGly-CTERM serine protease; Region: rhom_GG_sort; TIGR03902 167879005785 DTW domain; Region: DTW; cl01221 167879005786 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 167879005787 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 167879005788 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09258 167879005789 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 167879005790 dimer interface [polypeptide binding]; other site 167879005791 active site 167879005792 CoA binding pocket [chemical binding]; other site 167879005793 haloalkane dehalogenase; Provisional; Region: PRK03592 167879005794 peptide synthase; Provisional; Region: PRK09274 167879005795 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 167879005796 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_1; cd05910 167879005797 acyl-activating enzyme (AAE) consensus motif; other site 167879005798 putative AMP binding site [chemical binding]; other site 167879005799 putative active site [active] 167879005800 putative CoA binding site [chemical binding]; other site 167879005801 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 167879005802 3-beta hydroxysteroid dehydrogenase/isomerase family; Region: 3Beta_HSD; pfam01073 167879005803 NAD(P) binding site [chemical binding]; other site 167879005804 active site 167879005805 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 167879005806 active site 167879005807 short chain dehydrogenase; Provisional; Region: PRK06123 167879005808 classical (c) SDRs; Region: SDR_c; cd05233 167879005809 NAD(P) binding site [chemical binding]; other site 167879005810 active site 167879005811 Uncharacterized protein family (UPF0160); Region: UPF0160; pfam03690 167879005812 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 167879005813 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 167879005814 Domain of unknown function (DUF4287); Region: DUF4287; pfam14117 167879005815 Flagellin N-methylase; Region: FliB; pfam03692 167879005816 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 167879005817 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 167879005818 protein structure with unknown function; Region: DUF4144; pfam13642 167879005819 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 167879005820 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 167879005821 Transposase; Region: DEDD_Tnp_IS110; pfam01548 167879005822 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 167879005823 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 167879005824 outer membrane lipoprotein Blc; Provisional; Region: PRK10477 167879005825 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 167879005826 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 167879005827 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 167879005828 non-specific DNA binding site [nucleotide binding]; other site 167879005829 salt bridge; other site 167879005830 sequence-specific DNA binding site [nucleotide binding]; other site 167879005831 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 167879005832 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 167879005833 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 167879005834 Coenzyme A binding pocket [chemical binding]; other site 167879005835 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 167879005836 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 167879005837 Coenzyme A binding pocket [chemical binding]; other site 167879005838 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 167879005839 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 167879005840 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 167879005841 Coenzyme A binding pocket [chemical binding]; other site 167879005842 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 167879005843 M28 Zn-Peptidase IAP aminopeptidase may contain PA domain insert; Region: M28_like_5; cd08021 167879005844 Peptidase family M28; Region: Peptidase_M28; pfam04389 167879005845 metal binding site [ion binding]; metal-binding site 167879005846 YaeQ protein; Region: YaeQ; pfam07152 167879005847 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 167879005848 homodimer interface [polypeptide binding]; other site 167879005849 pyridoxal 5'-phosphate binding site [chemical binding]; other site 167879005850 catalytic residue [active] 167879005851 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 167879005852 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 167879005853 dimer interface [polypeptide binding]; other site 167879005854 active site 167879005855 metal binding site [ion binding]; metal-binding site 167879005856 glutathione binding site [chemical binding]; other site 167879005857 endonuclease III; Provisional; Region: PRK10702 167879005858 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 167879005859 minor groove reading motif; other site 167879005860 helix-hairpin-helix signature motif; other site 167879005861 substrate binding pocket [chemical binding]; other site 167879005862 active site 167879005863 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 167879005864 electron transport complex RsxE subunit; Provisional; Region: PRK12405 167879005865 electron transport complex protein RnfG; Validated; Region: PRK01908 167879005866 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 167879005867 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 167879005868 SLBB domain; Region: SLBB; pfam10531 167879005869 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 167879005870 electron transport complex protein RnfB; Provisional; Region: PRK05113 167879005871 Putative Fe-S cluster; Region: FeS; pfam04060 167879005872 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 167879005873 electron transport complex protein RsxA; Provisional; Region: PRK05151 167879005874 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879005875 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879005876 metal binding site [ion binding]; metal-binding site 167879005877 active site 167879005878 I-site; other site 167879005879 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 167879005880 ribosome maturation protein RimP; Reviewed; Region: PRK00092 167879005881 Sm and related proteins; Region: Sm_like; cl00259 167879005882 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 167879005883 putative oligomer interface [polypeptide binding]; other site 167879005884 putative RNA binding site [nucleotide binding]; other site 167879005885 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 167879005886 NusA N-terminal domain; Region: NusA_N; pfam08529 167879005887 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 167879005888 RNA binding site [nucleotide binding]; other site 167879005889 homodimer interface [polypeptide binding]; other site 167879005890 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 167879005891 G-X-X-G motif; other site 167879005892 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 167879005893 G-X-X-G motif; other site 167879005894 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 167879005895 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 167879005896 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 167879005897 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 167879005898 translation initiation factor IF-2; Region: IF-2; TIGR00487 167879005899 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 167879005900 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 167879005901 G1 box; other site 167879005902 putative GEF interaction site [polypeptide binding]; other site 167879005903 GTP/Mg2+ binding site [chemical binding]; other site 167879005904 Switch I region; other site 167879005905 G2 box; other site 167879005906 G3 box; other site 167879005907 Switch II region; other site 167879005908 G4 box; other site 167879005909 G5 box; other site 167879005910 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 167879005911 Translation-initiation factor 2; Region: IF-2; pfam11987 167879005912 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 167879005913 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 167879005914 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 167879005915 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 167879005916 RNA binding site [nucleotide binding]; other site 167879005917 active site 167879005918 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 167879005919 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 167879005920 16S/18S rRNA binding site [nucleotide binding]; other site 167879005921 S13e-L30e interaction site [polypeptide binding]; other site 167879005922 25S rRNA binding site [nucleotide binding]; other site 167879005923 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 167879005924 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 167879005925 RNase E interface [polypeptide binding]; other site 167879005926 trimer interface [polypeptide binding]; other site 167879005927 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 167879005928 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 167879005929 RNase E interface [polypeptide binding]; other site 167879005930 trimer interface [polypeptide binding]; other site 167879005931 active site 167879005932 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 167879005933 putative nucleic acid binding region [nucleotide binding]; other site 167879005934 G-X-X-G motif; other site 167879005935 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 167879005936 RNA binding site [nucleotide binding]; other site 167879005937 domain interface; other site 167879005938 lipoprotein NlpI; Provisional; Region: PRK11189 167879005939 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 167879005940 binding surface 167879005941 TPR motif; other site 167879005942 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 167879005943 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 167879005944 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 167879005945 catalytic residue [active] 167879005946 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 167879005947 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 167879005948 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 167879005949 putative ATP binding site [chemical binding]; other site 167879005950 putative substrate interface [chemical binding]; other site 167879005951 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 167879005952 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 167879005953 dimer interface [polypeptide binding]; other site 167879005954 active site 167879005955 citrylCoA binding site [chemical binding]; other site 167879005956 NADH binding [chemical binding]; other site 167879005957 cationic pore residues; other site 167879005958 oxalacetate/citrate binding site [chemical binding]; other site 167879005959 coenzyme A binding site [chemical binding]; other site 167879005960 catalytic triad [active] 167879005961 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 167879005962 Iron-sulfur protein interface; other site 167879005963 proximal quinone binding site [chemical binding]; other site 167879005964 SdhD (CybS) interface [polypeptide binding]; other site 167879005965 proximal heme binding site [chemical binding]; other site 167879005966 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 167879005967 SdhC subunit interface [polypeptide binding]; other site 167879005968 proximal heme binding site [chemical binding]; other site 167879005969 cardiolipin binding site; other site 167879005970 Iron-sulfur protein interface; other site 167879005971 proximal quinone binding site [chemical binding]; other site 167879005972 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 167879005973 L-aspartate oxidase; Provisional; Region: PRK06175 167879005974 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 167879005975 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 167879005976 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 167879005977 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 167879005978 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 167879005979 TPP-binding site [chemical binding]; other site 167879005980 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 167879005981 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 167879005982 E3 interaction surface; other site 167879005983 lipoyl attachment site [posttranslational modification]; other site 167879005984 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 167879005985 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 167879005986 E3 interaction surface; other site 167879005987 lipoyl attachment site [posttranslational modification]; other site 167879005988 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 167879005989 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 167879005990 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 167879005991 CoA-ligase; Region: Ligase_CoA; pfam00549 167879005992 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 167879005993 CoA binding domain; Region: CoA_binding; pfam02629 167879005994 CoA-ligase; Region: Ligase_CoA; pfam00549 167879005995 FRG domain; Region: FRG; pfam08867 167879005996 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 167879005997 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 167879005998 trimer interface [polypeptide binding]; other site 167879005999 putative metal binding site [ion binding]; other site 167879006000 CAAX protease self-immunity; Region: Abi; pfam02517 167879006001 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 167879006002 EF-hand domain pair; Region: EF_hand_5; pfam13499 167879006003 Ca2+ binding site [ion binding]; other site 167879006004 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 167879006005 Ca2+ binding site [ion binding]; other site 167879006006 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 167879006007 Ca2+ binding site [ion binding]; other site 167879006008 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 167879006009 substrate binding pocket [chemical binding]; other site 167879006010 membrane-bound complex binding site; other site 167879006011 hinge residues; other site 167879006012 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 167879006013 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 167879006014 substrate binding pocket [chemical binding]; other site 167879006015 membrane-bound complex binding site; other site 167879006016 hinge residues; other site 167879006017 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 167879006018 thioredoxin 2; Provisional; Region: PRK10996 167879006019 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 167879006020 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 167879006021 catalytic residues [active] 167879006022 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 167879006023 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 167879006024 FOG: CBS domain [General function prediction only]; Region: COG0517 167879006025 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_16; cd04629 167879006026 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 167879006027 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 167879006028 ATP binding site [chemical binding]; other site 167879006029 putative Mg++ binding site [ion binding]; other site 167879006030 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 167879006031 nucleotide binding region [chemical binding]; other site 167879006032 ATP-binding site [chemical binding]; other site 167879006033 Helicase associated domain (HA2); Region: HA2; pfam04408 167879006034 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 167879006035 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 167879006036 PilZ domain; Region: PilZ; pfam07238 167879006037 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 167879006038 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 167879006039 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 167879006040 putative RNA binding site [nucleotide binding]; other site 167879006041 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 167879006042 S-adenosylmethionine binding site [chemical binding]; other site 167879006043 acylphosphatase; Provisional; Region: PRK14451 167879006044 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 167879006045 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 167879006046 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 167879006047 dimer interface [polypeptide binding]; other site 167879006048 pyridoxal 5'-phosphate binding site [chemical binding]; other site 167879006049 catalytic residue [active] 167879006050 META domain; Region: META; pfam03724 167879006051 Protein of unknown function, DUF599; Region: DUF599; pfam04654 167879006052 Protein of unknown function (DUF2919); Region: DUF2919; pfam11143 167879006053 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 167879006054 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 167879006055 active site 167879006056 catalytic site [active] 167879006057 substrate binding site [chemical binding]; other site 167879006058 TIGR03503 family protein; Region: TIGR03503 167879006059 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 167879006060 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 167879006061 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 167879006062 active site 167879006063 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 167879006064 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 167879006065 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 167879006066 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 167879006067 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 167879006068 active site 167879006069 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 167879006070 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 167879006071 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 167879006072 putative active site [active] 167879006073 putative dimer interface [polypeptide binding]; other site 167879006074 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 167879006075 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 167879006076 S-adenosylmethionine binding site [chemical binding]; other site 167879006077 Protein of unknown function (DUF2947); Region: DUF2947; pfam11163 167879006078 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 167879006079 Sel1-like repeats; Region: SEL1; smart00671 167879006080 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 167879006081 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 167879006082 DEAD_2; Region: DEAD_2; pfam06733 167879006083 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 167879006084 DNA polymerase II; Reviewed; Region: PRK05762 167879006085 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 167879006086 active site 167879006087 catalytic site [active] 167879006088 substrate binding site [chemical binding]; other site 167879006089 DNA polymerase type-II subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II; cd05537 167879006090 active site 167879006091 metal-binding site 167879006092 cystathionine beta-lyase; Provisional; Region: PRK09028 167879006093 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 167879006094 homodimer interface [polypeptide binding]; other site 167879006095 substrate-cofactor binding pocket; other site 167879006096 pyridoxal 5'-phosphate binding site [chemical binding]; other site 167879006097 catalytic residue [active] 167879006098 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 167879006099 active site 167879006100 Zn binding site [ion binding]; other site 167879006101 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 167879006102 nucleotide binding site/active site [active] 167879006103 HIT family signature motif; other site 167879006104 catalytic residue [active] 167879006105 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 167879006106 Histidine kinase; Region: His_kinase; pfam06580 167879006107 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 167879006108 ATP binding site [chemical binding]; other site 167879006109 Mg2+ binding site [ion binding]; other site 167879006110 G-X-G motif; other site 167879006111 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 167879006112 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 167879006113 active site 167879006114 phosphorylation site [posttranslational modification] 167879006115 intermolecular recognition site; other site 167879006116 dimerization interface [polypeptide binding]; other site 167879006117 LytTr DNA-binding domain; Region: LytTR; smart00850 167879006118 pyruvate kinase; Provisional; Region: PRK05826 167879006119 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 167879006120 domain interfaces; other site 167879006121 active site 167879006122 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 167879006123 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 167879006124 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 167879006125 putative active site [active] 167879006126 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 167879006127 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 167879006128 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 167879006129 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 167879006130 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 167879006131 putative active site [active] 167879006132 phosphogluconate dehydratase; Validated; Region: PRK09054 167879006133 6-phosphogluconate dehydratase; Region: edd; TIGR01196 167879006134 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 167879006135 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 167879006136 active site 167879006137 intersubunit interface [polypeptide binding]; other site 167879006138 catalytic residue [active] 167879006139 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 167879006140 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 167879006141 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 167879006142 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 167879006143 homodimer interface [polypeptide binding]; other site 167879006144 oligonucleotide binding site [chemical binding]; other site 167879006145 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 167879006146 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 167879006147 RNA binding surface [nucleotide binding]; other site 167879006148 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 167879006149 active site 167879006150 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 167879006151 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 167879006152 motif II; other site 167879006153 Maf-like protein; Region: Maf; pfam02545 167879006154 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 167879006155 active site 167879006156 dimer interface [polypeptide binding]; other site 167879006157 hypothetical protein; Provisional; Region: PRK11193 167879006158 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 167879006159 putative phosphate acyltransferase; Provisional; Region: PRK05331 167879006160 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 167879006161 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 167879006162 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 167879006163 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 167879006164 NAD(P) binding site [chemical binding]; other site 167879006165 homotetramer interface [polypeptide binding]; other site 167879006166 homodimer interface [polypeptide binding]; other site 167879006167 active site 167879006168 acyl carrier protein; Provisional; Region: acpP; PRK00982 167879006169 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 167879006170 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 167879006171 dimer interface [polypeptide binding]; other site 167879006172 active site 167879006173 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 167879006174 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 167879006175 pyridoxal 5'-phosphate binding site [chemical binding]; other site 167879006176 catalytic residue [active] 167879006177 YceG-like family; Region: YceG; pfam02618 167879006178 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 167879006179 dimerization interface [polypeptide binding]; other site 167879006180 thymidylate kinase; Validated; Region: tmk; PRK00698 167879006181 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 167879006182 TMP-binding site; other site 167879006183 ATP-binding site [chemical binding]; other site 167879006184 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 167879006185 DNA polymerase III subunit delta'; Validated; Region: PRK08485 167879006186 PilZ domain; Region: PilZ; cl01260 167879006187 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 167879006188 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 167879006189 active site 167879006190 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 167879006191 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 167879006192 TrkA-N domain; Region: TrkA_N; pfam02254 167879006193 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 167879006194 active site 167879006195 catalytic triad [active] 167879006196 oxyanion hole [active] 167879006197 switch loop; other site 167879006198 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 167879006199 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 167879006200 Walker A/P-loop; other site 167879006201 ATP binding site [chemical binding]; other site 167879006202 Q-loop/lid; other site 167879006203 ABC transporter signature motif; other site 167879006204 Walker B; other site 167879006205 D-loop; other site 167879006206 H-loop/switch region; other site 167879006207 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 167879006208 FtsX-like permease family; Region: FtsX; pfam02687 167879006209 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 167879006210 Domain of unknown function DUF20; Region: UPF0118; pfam01594 167879006211 E3 ubiquitin-protein ligase SlrP; Provisional; Region: PRK15370 167879006212 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 167879006213 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 167879006214 YciI-like protein; Reviewed; Region: PRK11370 167879006215 Intracellular septation protein A; Region: IspA; pfam04279 167879006216 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 167879006217 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 167879006218 Walker A motif; other site 167879006219 ATP binding site [chemical binding]; other site 167879006220 Walker B motif; other site 167879006221 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 167879006222 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits of...; Region: NorE_like; cd02862 167879006223 Subunit I/III interface [polypeptide binding]; other site 167879006224 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; pfam03626 167879006225 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 167879006226 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 167879006227 metal ion-dependent adhesion site (MIDAS); other site 167879006228 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 167879006229 catalytic loop [active] 167879006230 iron binding site [ion binding]; other site 167879006231 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 167879006232 dimer interface [polypeptide binding]; other site 167879006233 putative radical transfer pathway; other site 167879006234 diiron center [ion binding]; other site 167879006235 tyrosyl radical; other site 167879006236 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 167879006237 ATP cone domain; Region: ATP-cone; pfam03477 167879006238 Class I ribonucleotide reductase; Region: RNR_I; cd01679 167879006239 active site 167879006240 dimer interface [polypeptide binding]; other site 167879006241 catalytic residues [active] 167879006242 effector binding site; other site 167879006243 R2 peptide binding site; other site 167879006244 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 167879006245 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 167879006246 Methyltransferase domain; Region: Methyltransf_32; pfam13679 167879006247 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 167879006248 S-adenosylmethionine binding site [chemical binding]; other site 167879006249 DNA gyrase subunit A; Validated; Region: PRK05560 167879006250 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 167879006251 CAP-like domain; other site 167879006252 active site 167879006253 primary dimer interface [polypeptide binding]; other site 167879006254 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 167879006255 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 167879006256 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 167879006257 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 167879006258 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 167879006259 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 167879006260 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 167879006261 homodimer interface [polypeptide binding]; other site 167879006262 substrate-cofactor binding pocket; other site 167879006263 pyridoxal 5'-phosphate binding site [chemical binding]; other site 167879006264 catalytic residue [active] 167879006265 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 167879006266 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 167879006267 hinge; other site 167879006268 active site 167879006269 cytidylate kinase; Provisional; Region: cmk; PRK00023 167879006270 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 167879006271 CMP-binding site; other site 167879006272 The sites determining sugar specificity; other site 167879006273 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 167879006274 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 167879006275 RNA binding site [nucleotide binding]; other site 167879006276 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 167879006277 RNA binding site [nucleotide binding]; other site 167879006278 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 167879006279 RNA binding site [nucleotide binding]; other site 167879006280 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec4; cd05689 167879006281 RNA binding site [nucleotide binding]; other site 167879006282 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 167879006283 RNA binding site [nucleotide binding]; other site 167879006284 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 167879006285 RNA binding site [nucleotide binding]; other site 167879006286 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 167879006287 IHF dimer interface [polypeptide binding]; other site 167879006288 IHF - DNA interface [nucleotide binding]; other site 167879006289 tetratricopeptide repeat protein; Provisional; Region: PRK11788 167879006290 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 167879006291 TPR motif; other site 167879006292 binding surface 167879006293 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 167879006294 binding surface 167879006295 TPR motif; other site 167879006296 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 167879006297 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 167879006298 active site 167879006299 dimer interface [polypeptide binding]; other site 167879006300 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 167879006301 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 167879006302 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 167879006303 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 167879006304 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 167879006305 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 167879006306 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 167879006307 SelR domain; Region: SelR; pfam01641 167879006308 Protein of unknown function (DUF2989); Region: DUF2989; pfam11207 167879006309 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 167879006310 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 167879006311 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 167879006312 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 167879006313 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 167879006314 sulfur relay protein TusB/DsrH; Region: sulf_tusB_dsrH; TIGR03011 167879006315 sulfur relay protein TusC/DsrF; Region: sulf_tusC_dsrF; TIGR03010 167879006316 sulfur relay protein TusD/DsrE; Region: sulf_tusD_dsrE; TIGR03012 167879006317 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 167879006318 YccA-like proteins; Region: YccA_like; cd10433 167879006319 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 167879006320 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 167879006321 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 167879006322 active site 167879006323 DNA binding site [nucleotide binding] 167879006324 Int/Topo IB signature motif; other site 167879006325 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 167879006326 Sulfatase; Region: Sulfatase; cl17466 167879006327 Sulfatase; Region: Sulfatase; cl17466 167879006328 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 167879006329 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 167879006330 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 167879006331 ligand-binding site [chemical binding]; other site 167879006332 S-100: S-100 domain, which represents the largest family within the superfamily of proteins carrying the Ca-binding EF-hand motif. Note that this S-100 hierarchy contains only S-100 EF-hand domains, other EF-hands have been modeled separately. S100...; Region: S-100; cl08302 167879006333 dimerization interface [polypeptide binding]; other site 167879006334 Ca2+ binding site [ion binding]; other site 167879006335 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 167879006336 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 167879006337 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 167879006338 Sulfatase; Region: Sulfatase; pfam00884 167879006339 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 167879006340 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 167879006341 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 167879006342 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; cd00229 167879006343 active site 167879006344 catalytic triad [active] 167879006345 oxyanion hole [active] 167879006346 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 167879006347 Sulfatase; Region: Sulfatase; pfam00884 167879006348 Sulfatase; Region: Sulfatase; cl17466 167879006349 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 167879006350 Sulfatase; Region: Sulfatase; cl17466 167879006351 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 167879006352 Salmonella repeat of unknown function (DUF823); Region: DUF823; pfam05689 167879006353 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 167879006354 Transcriptional regulators [Transcription]; Region: PurR; COG1609 167879006355 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 167879006356 DNA binding site [nucleotide binding] 167879006357 domain linker motif; other site 167879006358 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 167879006359 putative dimerization interface [polypeptide binding]; other site 167879006360 putative ligand binding site [chemical binding]; other site 167879006361 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 167879006362 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 167879006363 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 167879006364 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 167879006365 Sulfatase; Region: Sulfatase; cl17466 167879006366 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 167879006367 Transcriptional regulators [Transcription]; Region: PurR; COG1609 167879006368 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 167879006369 DNA binding site [nucleotide binding] 167879006370 domain linker motif; other site 167879006371 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 167879006372 putative dimerization interface [polypeptide binding]; other site 167879006373 putative ligand binding site [chemical binding]; other site 167879006374 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 167879006375 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 167879006376 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 167879006377 HEAT repeats; Region: HEAT_2; pfam13646 167879006378 TPR repeat; Region: TPR_11; pfam13414 167879006379 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 167879006380 binding surface 167879006381 TPR motif; other site 167879006382 TPR repeat; Region: TPR_11; pfam13414 167879006383 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 167879006384 binding surface 167879006385 TPR motif; other site 167879006386 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 167879006387 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 167879006388 PA14 domain; Region: PA14; cl08459 167879006389 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 167879006390 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 167879006391 Sulfatase; Region: Sulfatase; cl17466 167879006392 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 167879006393 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 167879006394 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 167879006395 Protein export membrane protein; Region: SecD_SecF; cl14618 167879006396 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 167879006397 HlyD family secretion protein; Region: HlyD_3; pfam13437 167879006398 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 167879006399 osmolarity response regulator; Provisional; Region: ompR; PRK09468 167879006400 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 167879006401 active site 167879006402 phosphorylation site [posttranslational modification] 167879006403 intermolecular recognition site; other site 167879006404 dimerization interface [polypeptide binding]; other site 167879006405 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 167879006406 DNA binding site [nucleotide binding] 167879006407 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 167879006408 dimerization interface [polypeptide binding]; other site 167879006409 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 167879006410 dimer interface [polypeptide binding]; other site 167879006411 phosphorylation site [posttranslational modification] 167879006412 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 167879006413 ATP binding site [chemical binding]; other site 167879006414 Mg2+ binding site [ion binding]; other site 167879006415 G-X-G motif; other site 167879006416 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 167879006417 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 167879006418 putative substrate translocation pore; other site 167879006419 glucokinase; Provisional; Region: glk; PRK00292 167879006420 glucokinase, proteobacterial type; Region: glk; TIGR00749 167879006421 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 167879006422 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 167879006423 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879006424 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879006425 metal binding site [ion binding]; metal-binding site 167879006426 active site 167879006427 I-site; other site 167879006428 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 167879006429 binding surface 167879006430 TPR motif; other site 167879006431 TPR repeat; Region: TPR_11; pfam13414 167879006432 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 167879006433 Caspase domain; Region: Peptidase_C14; pfam00656 167879006434 substrate pocket [chemical binding]; other site 167879006435 active site 167879006436 dimer interface [polypeptide binding]; other site 167879006437 proteolytic cleavage site; other site 167879006438 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 167879006439 putative phosphate binding site [ion binding]; other site 167879006440 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation," the...; Region: Lipase_3; cd00519 167879006441 active site flap/lid [active] 167879006442 nucleophilic elbow; other site 167879006443 catalytic triad [active] 167879006444 Endonuclease I; Region: Endonuclease_1; cl01003 167879006445 Transposase; Region: HTH_Tnp_1; cl17663 167879006446 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 167879006447 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 167879006448 Sel1-like repeats; Region: SEL1; smart00671 167879006449 Sel1-like repeats; Region: SEL1; smart00671 167879006450 Sel1-like repeats; Region: SEL1; smart00671 167879006451 Sel1-like repeats; Region: SEL1; smart00671 167879006452 Sel1-like repeats; Region: SEL1; smart00671 167879006453 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 167879006454 catalytic residues [active] 167879006455 Protein of unknown function (DUF1186); Region: DUF1186; pfam06685 167879006456 SWIM/SEC-C metal-binding motif protein, PBPRA1643 family; Region: SWIM_PBPRA1643; TIGR04102 167879006457 SEC-C motif; Region: SEC-C; pfam02810 167879006458 Nuclease-related domain; Region: NERD; pfam08378 167879006459 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 167879006460 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 167879006461 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 167879006462 putative active site [active] 167879006463 putative metal-binding site [ion binding]; other site 167879006464 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 167879006465 Part of AAA domain; Region: AAA_19; pfam13245 167879006466 Predicted thiol-disulfide oxidoreductase [General function prediction only]; Region: COG3011 167879006467 Predicted metal-binding integral membrane protein [Function unknown]; Region: COG5486 167879006468 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 167879006469 Protein of unknown function (DUF1326); Region: DUF1326; pfam07040 167879006470 DTW domain; Region: DTW; cl01221 167879006471 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 167879006472 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 167879006473 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 167879006474 FeS/SAM binding site; other site 167879006475 Protein of unknown function (DUF4080); Region: DUF4080; pfam13311 167879006476 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 167879006477 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 167879006478 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 167879006479 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 167879006480 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 167879006481 Walker A/P-loop; other site 167879006482 ATP binding site [chemical binding]; other site 167879006483 Q-loop/lid; other site 167879006484 ABC transporter signature motif; other site 167879006485 Walker B; other site 167879006486 D-loop; other site 167879006487 H-loop/switch region; other site 167879006488 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 167879006489 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 167879006490 Walker A/P-loop; other site 167879006491 ATP binding site [chemical binding]; other site 167879006492 Q-loop/lid; other site 167879006493 ABC transporter signature motif; other site 167879006494 Walker B; other site 167879006495 D-loop; other site 167879006496 H-loop/switch region; other site 167879006497 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 167879006498 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 167879006499 HlyD family secretion protein; Region: HlyD_3; pfam13437 167879006500 VCBS repeat; Region: VCBS_repeat; TIGR01965 167879006501 VCBS repeat; Region: VCBS_repeat; TIGR01965 167879006502 VCBS repeat; Region: VCBS_repeat; TIGR01965 167879006503 VCBS repeat; Region: VCBS_repeat; TIGR01965 167879006504 VCBS repeat; Region: VCBS_repeat; TIGR01965 167879006505 VCBS repeat; Region: VCBS_repeat; TIGR01965 167879006506 VCBS repeat; Region: VCBS_repeat; TIGR01965 167879006507 VCBS repeat; Region: VCBS_repeat; TIGR01965 167879006508 VCBS repeat; Region: VCBS_repeat; TIGR01965 167879006509 VCBS repeat; Region: VCBS_repeat; TIGR01965 167879006510 VCBS repeat; Region: VCBS_repeat; TIGR01965 167879006511 VCBS repeat; Region: VCBS_repeat; TIGR01965 167879006512 VCBS repeat; Region: VCBS_repeat; TIGR01965 167879006513 VCBS repeat; Region: VCBS_repeat; TIGR01965 167879006514 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 167879006515 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 167879006516 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 167879006517 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 167879006518 putative C-terminal domain interface [polypeptide binding]; other site 167879006519 putative GSH binding site (G-site) [chemical binding]; other site 167879006520 putative dimer interface [polypeptide binding]; other site 167879006521 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 167879006522 N-terminal domain interface [polypeptide binding]; other site 167879006523 Predicted permeases [General function prediction only]; Region: RarD; COG2962 167879006524 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 167879006525 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 167879006526 tetramer interface [polypeptide binding]; other site 167879006527 heme binding pocket [chemical binding]; other site 167879006528 NADPH binding site [chemical binding]; other site 167879006529 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 167879006530 putative active site pocket [active] 167879006531 dimerization interface [polypeptide binding]; other site 167879006532 putative catalytic residue [active] 167879006533 hypothetical protein; Provisional; Region: PRK10621 167879006534 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 167879006535 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 167879006536 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 167879006537 WHG domain; Region: WHG; pfam13305 167879006538 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 167879006539 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 167879006540 active site 167879006541 FMN binding site [chemical binding]; other site 167879006542 2,4-decadienoyl-CoA binding site; other site 167879006543 catalytic residue [active] 167879006544 4Fe-4S cluster binding site [ion binding]; other site 167879006545 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 167879006546 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 167879006547 Predicted permeases [General function prediction only]; Region: COG0701 167879006548 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 167879006549 dimerization interface [polypeptide binding]; other site 167879006550 putative DNA binding site [nucleotide binding]; other site 167879006551 putative Zn2+ binding site [ion binding]; other site 167879006552 Part of AAA domain; Region: AAA_19; pfam13245 167879006553 Family description; Region: UvrD_C_2; pfam13538 167879006554 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 167879006555 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 167879006556 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 167879006557 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 167879006558 HflX GTPase family; Region: HflX; cd01878 167879006559 G1 box; other site 167879006560 GTP/Mg2+ binding site [chemical binding]; other site 167879006561 Switch I region; other site 167879006562 G2 box; other site 167879006563 G3 box; other site 167879006564 Switch II region; other site 167879006565 G4 box; other site 167879006566 G5 box; other site 167879006567 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 167879006568 hypothetical protein; Provisional; Region: PRK00967 167879006569 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 167879006570 hypothetical protein; Provisional; Region: PRK10621 167879006571 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 167879006572 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 167879006573 Methionyl-tRNA formyltransferase [Translation, ribosomal structure and biogenesis]; Region: Fmt; COG0223 167879006574 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 167879006575 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 167879006576 Coenzyme A binding pocket [chemical binding]; other site 167879006577 Cupin domain; Region: Cupin_2; cl17218 167879006578 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 167879006579 putative FMN binding site [chemical binding]; other site 167879006580 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 167879006581 homodecamer interface [polypeptide binding]; other site 167879006582 GTP cyclohydrolase I; Provisional; Region: PLN03044 167879006583 active site 167879006584 putative catalytic site residues [active] 167879006585 zinc binding site [ion binding]; other site 167879006586 GTP-CH-I/GFRP interaction surface; other site 167879006587 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 167879006588 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 167879006589 substrate binding pocket [chemical binding]; other site 167879006590 membrane-bound complex binding site; other site 167879006591 hinge residues; other site 167879006592 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 167879006593 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 167879006594 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 167879006595 trimer interface [polypeptide binding]; other site 167879006596 eyelet of channel; other site 167879006597 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 167879006598 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 167879006599 active site 167879006600 phosphorylation site [posttranslational modification] 167879006601 intermolecular recognition site; other site 167879006602 dimerization interface [polypeptide binding]; other site 167879006603 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 167879006604 DNA binding site [nucleotide binding] 167879006605 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 167879006606 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 167879006607 substrate binding pocket [chemical binding]; other site 167879006608 membrane-bound complex binding site; other site 167879006609 hinge residues; other site 167879006610 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 167879006611 dimerization interface [polypeptide binding]; other site 167879006612 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 167879006613 dimer interface [polypeptide binding]; other site 167879006614 phosphorylation site [posttranslational modification] 167879006615 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 167879006616 ATP binding site [chemical binding]; other site 167879006617 Mg2+ binding site [ion binding]; other site 167879006618 G-X-G motif; other site 167879006619 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 167879006620 Response regulator receiver domain; Region: Response_reg; pfam00072 167879006621 active site 167879006622 phosphorylation site [posttranslational modification] 167879006623 intermolecular recognition site; other site 167879006624 dimerization interface [polypeptide binding]; other site 167879006625 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 167879006626 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 167879006627 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 167879006628 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 167879006629 dimer interface [polypeptide binding]; other site 167879006630 active site 167879006631 glycine-pyridoxal phosphate binding site [chemical binding]; other site 167879006632 folate binding site [chemical binding]; other site 167879006633 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 167879006634 hydroxyglutarate oxidase; Provisional; Region: PRK11728 167879006635 Sarcosine oxidase delta subunit [Amino acid transport and metabolism]; Region: SoxD; COG4311 167879006636 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 167879006637 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 167879006638 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 167879006639 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 167879006640 Sarcosine oxidase gamma subunit [Amino acid transport and metabolism]; Region: COG4583 167879006641 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK13010 167879006642 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 167879006643 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 167879006644 putative active site [active] 167879006645 putative substrate binding site [chemical binding]; other site 167879006646 putative cosubstrate binding site; other site 167879006647 catalytic site [active] 167879006648 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 167879006649 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 167879006650 non-specific DNA binding site [nucleotide binding]; other site 167879006651 salt bridge; other site 167879006652 sequence-specific DNA binding site [nucleotide binding]; other site 167879006653 Cupin domain; Region: Cupin_2; pfam07883 167879006654 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 167879006655 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879006656 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879006657 metal binding site [ion binding]; metal-binding site 167879006658 active site 167879006659 I-site; other site 167879006660 Histone acetyltransferase HPA2 and related acetyltransferases [Transcription / General function prediction only]; Region: WecD; COG0454 167879006661 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 167879006662 Coenzyme A binding pocket [chemical binding]; other site 167879006663 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 167879006664 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 167879006665 Coenzyme A binding pocket [chemical binding]; other site 167879006666 Cupin domain; Region: Cupin_2; pfam07883 167879006667 Bacterial protein of unknown function (DUF922); Region: DUF922; pfam06037 167879006668 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 167879006669 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 167879006670 putative C-terminal domain interface [polypeptide binding]; other site 167879006671 putative GSH binding site (G-site) [chemical binding]; other site 167879006672 putative dimer interface [polypeptide binding]; other site 167879006673 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 167879006674 N-terminal domain interface [polypeptide binding]; other site 167879006675 dimer interface [polypeptide binding]; other site 167879006676 substrate binding pocket (H-site) [chemical binding]; other site 167879006677 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 167879006678 Protein of unknown function (DUF962); Region: DUF962; pfam06127 167879006679 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 167879006680 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 167879006681 potential catalytic triad [active] 167879006682 conserved cys residue [active] 167879006683 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 167879006684 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 167879006685 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 167879006686 Coenzyme A binding pocket [chemical binding]; other site 167879006687 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 167879006688 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 167879006689 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 167879006690 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 167879006691 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 167879006692 catalytic residues [active] 167879006693 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 167879006694 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 167879006695 HPP family; Region: HPP; pfam04982 167879006696 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 167879006697 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 167879006698 Uncharacterized conserved protein [Function unknown]; Region: COG3791 167879006699 Domain of unknown function (DUF4156); Region: DUF4156; pfam13698 167879006700 Lin1944 and related proteins, classical (c) SDRs; Region: Lin1944_like_SDR_c; cd11731 167879006701 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 167879006702 putative NAD(P) binding site [chemical binding]; other site 167879006703 homodimer interface [polypeptide binding]; other site 167879006704 Transcriptional regulator [Transcription]; Region: LysR; COG0583 167879006705 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879006706 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 167879006707 putative effector binding pocket; other site 167879006708 dimerization interface [polypeptide binding]; other site 167879006709 xanthine permease; Region: pbuX; TIGR03173 167879006710 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 167879006711 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 167879006712 dimer interface [polypeptide binding]; other site 167879006713 phosphorylation site [posttranslational modification] 167879006714 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 167879006715 ATP binding site [chemical binding]; other site 167879006716 Mg2+ binding site [ion binding]; other site 167879006717 G-X-G motif; other site 167879006718 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 167879006719 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 167879006720 active site 167879006721 phosphorylation site [posttranslational modification] 167879006722 intermolecular recognition site; other site 167879006723 dimerization interface [polypeptide binding]; other site 167879006724 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 167879006725 DNA binding site [nucleotide binding] 167879006726 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 167879006727 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 167879006728 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 167879006729 Walker A/P-loop; other site 167879006730 ATP binding site [chemical binding]; other site 167879006731 Q-loop/lid; other site 167879006732 ABC transporter signature motif; other site 167879006733 Walker B; other site 167879006734 D-loop; other site 167879006735 H-loop/switch region; other site 167879006736 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 167879006737 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 167879006738 substrate binding site [chemical binding]; other site 167879006739 oxyanion hole (OAH) forming residues; other site 167879006740 trimer interface [polypeptide binding]; other site 167879006741 Ketosteroid isomerase-related protein [General function prediction only]; Region: COG3631 167879006742 Transcriptional regulator [Transcription]; Region: LysR; COG0583 167879006743 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879006744 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 167879006745 putative effector binding pocket; other site 167879006746 dimerization interface [polypeptide binding]; other site 167879006747 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 167879006748 Family of unknown function (DUF490); Region: DUF490; pfam04357 167879006749 Family of unknown function (DUF490); Region: DUF490; pfam04357 167879006750 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 167879006751 Surface antigen; Region: Bac_surface_Ag; pfam01103 167879006752 MltA-interacting protein MipA; Region: MipA; cl01504 167879006753 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 167879006754 Predicted membrane protein (DUF2238); Region: DUF2238; pfam09997 167879006755 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cl01268 167879006756 putative substrate binding pocket [chemical binding]; other site 167879006757 trimer interface [polypeptide binding]; other site 167879006758 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 167879006759 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 167879006760 Coenzyme A binding pocket [chemical binding]; other site 167879006761 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 167879006762 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 167879006763 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 167879006764 homodimer interface [polypeptide binding]; other site 167879006765 substrate-cofactor binding pocket; other site 167879006766 pyridoxal 5'-phosphate binding site [chemical binding]; other site 167879006767 catalytic residue [active] 167879006768 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 167879006769 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 167879006770 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 167879006771 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 167879006772 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 167879006773 PA_M28_2: Protease-associated (PA) domain, peptidase family M28, subfamily-2. A subfamily of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions; Region: PA_M28_2; cd04815 167879006774 PA/protease or protease-like domain interface [polypeptide binding]; other site 167879006775 M28 Zn-Peptidase Plasma glutamate carboxypeptidase; Region: M28_Pgcp_like; cd03883 167879006776 Peptidase family M28; Region: Peptidase_M28; pfam04389 167879006777 metal binding site [ion binding]; metal-binding site 167879006778 Histone acetyltransferase HPA2 and related acetyltransferases [Transcription / General function prediction only]; Region: WecD; COG0454 167879006779 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 167879006780 Coenzyme A binding pocket [chemical binding]; other site 167879006781 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 167879006782 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 167879006783 catalytic residues [active] 167879006784 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 167879006785 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 167879006786 putative active site [active] 167879006787 Zn binding site [ion binding]; other site 167879006788 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 167879006789 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 167879006790 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 167879006791 Helix-turn-helix domain; Region: HTH_18; pfam12833 167879006792 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 167879006793 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 167879006794 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 167879006795 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 167879006796 HlyD family secretion protein; Region: HlyD_3; pfam13437 167879006797 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 167879006798 Protein export membrane protein; Region: SecD_SecF; cl14618 167879006799 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 167879006800 Protein of unknown function (DUF1315); Region: DUF1315; pfam07023 167879006801 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 167879006802 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 167879006803 active site 167879006804 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 167879006805 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 167879006806 Coenzyme A binding pocket [chemical binding]; other site 167879006807 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 167879006808 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 167879006809 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 167879006810 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 167879006811 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 167879006812 active site 167879006813 SWIM/SEC-C metal-binding motif protein, PBPRA1643 family; Region: SWIM_PBPRA1643; TIGR04102 167879006814 SEC-C motif; Region: SEC-C; pfam02810 167879006815 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 167879006816 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 167879006817 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 167879006818 Helix-turn-helix domain; Region: HTH_18; pfam12833 167879006819 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 167879006820 Cell division protein ZapA; Region: ZapA; pfam05164 167879006821 septum formation inhibitor; Reviewed; Region: minC; PRK04804 167879006822 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 167879006823 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 167879006824 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 167879006825 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 167879006826 Switch I; other site 167879006827 Switch II; other site 167879006828 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 167879006829 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 167879006830 active site 167879006831 homodimer interface [polypeptide binding]; other site 167879006832 protease 4; Provisional; Region: PRK10949 167879006833 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 167879006834 tandem repeat interface [polypeptide binding]; other site 167879006835 oligomer interface [polypeptide binding]; other site 167879006836 active site residues [active] 167879006837 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 167879006838 tandem repeat interface [polypeptide binding]; other site 167879006839 oligomer interface [polypeptide binding]; other site 167879006840 active site residues [active] 167879006841 Predicted membrane protein [Function unknown]; Region: COG2259 167879006842 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 167879006843 EamA-like transporter family; Region: EamA; pfam00892 167879006844 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 167879006845 putative FMN binding site [chemical binding]; other site 167879006846 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 167879006847 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 167879006848 putative dimer interface [polypeptide binding]; other site 167879006849 putative anticodon binding site; other site 167879006850 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 167879006851 homodimer interface [polypeptide binding]; other site 167879006852 motif 1; other site 167879006853 motif 2; other site 167879006854 active site 167879006855 motif 3; other site 167879006856 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 167879006857 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 167879006858 inhibitor-cofactor binding pocket; inhibition site 167879006859 pyridoxal 5'-phosphate binding site [chemical binding]; other site 167879006860 catalytic residue [active] 167879006861 biotin synthase; Provisional; Region: PRK15108 167879006862 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 167879006863 FeS/SAM binding site; other site 167879006864 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 167879006865 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 167879006866 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 167879006867 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 167879006868 catalytic residue [active] 167879006869 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 167879006870 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 167879006871 S-adenosylmethionine binding site [chemical binding]; other site 167879006872 AAA domain; Region: AAA_26; pfam13500 167879006873 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 167879006874 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 167879006875 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 167879006876 Tubulin/FtsZ family, GTPase domain; Region: Tubulin; pfam00091 167879006877 nucleotide binding site [chemical binding]; other site 167879006878 SulA interaction site; other site 167879006879 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 167879006880 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 167879006881 catalytic triad [active] 167879006882 Transcriptional regulator [Transcription]; Region: LysR; COG0583 167879006883 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879006884 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 167879006885 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 167879006886 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879006887 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879006888 metal binding site [ion binding]; metal-binding site 167879006889 active site 167879006890 I-site; other site 167879006891 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 167879006892 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 167879006893 Protein of unknown function (DUF1414); Region: DUF1414; cl01175 167879006894 Nucleoid-associated protein [General function prediction only]; Region: COG3081 167879006895 nucleoid-associated protein NdpA; Validated; Region: PRK00378 167879006896 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 167879006897 active site 167879006898 substrate binding pocket [chemical binding]; other site 167879006899 dimer interface [polypeptide binding]; other site 167879006900 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 167879006901 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 167879006902 Peptidase family M23; Region: Peptidase_M23; pfam01551 167879006903 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 167879006904 tellurite resistance protein TehB; Provisional; Region: PRK11207 167879006905 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 167879006906 S-adenosylmethionine binding site [chemical binding]; other site 167879006907 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 167879006908 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 167879006909 Ligand Binding Site [chemical binding]; other site 167879006910 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 167879006911 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 167879006912 Beta-Casp domain; Region: Beta-Casp; pfam10996 167879006913 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 167879006914 Excalibur calcium-binding domain; Region: Excalibur; pfam05901 167879006915 acetoacetyl-CoA reductase; Provisional; Region: PRK12824 167879006916 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 167879006917 NAD(P) binding site [chemical binding]; other site 167879006918 homotetramer interface [polypeptide binding]; other site 167879006919 homodimer interface [polypeptide binding]; other site 167879006920 active site 167879006921 putative acyltransferase; Provisional; Region: PRK05790 167879006922 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 167879006923 dimer interface [polypeptide binding]; other site 167879006924 active site 167879006925 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 167879006926 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 167879006927 Int/Topo IB signature motif; other site 167879006928 Domains similar to the eukaryotic reeler domain and bacterial cohesins; Region: Reeler_cohesin_like; cl14606 167879006929 PEP-CTERM protein-sorting domain; Region: PEP_exosort; TIGR02595 167879006930 Endonuclease I; Region: Endonuclease_1; pfam04231 167879006931 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 167879006932 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 167879006933 generic binding surface II; other site 167879006934 generic binding surface I; other site 167879006935 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 167879006936 putative active site [active] 167879006937 putative catalytic site [active] 167879006938 putative Mg binding site IVb [ion binding]; other site 167879006939 putative phosphate binding site [ion binding]; other site 167879006940 putative DNA binding site [nucleotide binding]; other site 167879006941 putative Mg binding site IVa [ion binding]; other site 167879006942 EamA-like transporter family; Region: EamA; pfam00892 167879006943 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 167879006944 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 167879006945 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 167879006946 methionine sulfoxide reductase A; Provisional; Region: PRK05528 167879006947 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 167879006948 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 167879006949 Walker A/P-loop; other site 167879006950 ATP binding site [chemical binding]; other site 167879006951 Q-loop/lid; other site 167879006952 ABC transporter signature motif; other site 167879006953 Walker B; other site 167879006954 D-loop; other site 167879006955 H-loop/switch region; other site 167879006956 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 167879006957 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 167879006958 Coenzyme A binding pocket [chemical binding]; other site 167879006959 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 167879006960 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 167879006961 FOG: PKD repeat [General function prediction only]; Region: COG3291 167879006962 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 167879006963 Peptidase of plants and bacteria; Region: BSP; pfam04450 167879006964 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cd00249 167879006965 dimerization interface [polypeptide binding]; other site 167879006966 putative active cleft [active] 167879006967 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 167879006968 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 167879006969 putative substrate binding site [chemical binding]; other site 167879006970 putative ATP binding site [chemical binding]; other site 167879006971 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 167879006972 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 167879006973 putative substrate translocation pore; other site 167879006974 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 167879006975 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 167879006976 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 167879006977 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 167879006978 Transcriptional regulators [Transcription]; Region: PurR; COG1609 167879006979 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 167879006980 DNA binding site [nucleotide binding] 167879006981 domain linker motif; other site 167879006982 Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria; Region: PBP1_MalI_like; cd06289 167879006983 putative dimerization interface [polypeptide binding]; other site 167879006984 putative ligand binding site [chemical binding]; other site 167879006985 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 167879006986 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 167879006987 FOG: PKD repeat [General function prediction only]; Region: COG3291 167879006988 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 167879006989 Peptidase of plants and bacteria; Region: BSP; pfam04450 167879006990 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 167879006991 CHAP domain; Region: CHAP; cl17642 167879006992 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 167879006993 DEAD-like helicases superfamily; Region: DEXDc; smart00487 167879006994 ATP binding site [chemical binding]; other site 167879006995 Mg++ binding site [ion binding]; other site 167879006996 motif III; other site 167879006997 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 167879006998 nucleotide binding region [chemical binding]; other site 167879006999 ATP-binding site [chemical binding]; other site 167879007000 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 167879007001 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 167879007002 dimer interface [polypeptide binding]; other site 167879007003 putative CheW interface [polypeptide binding]; other site 167879007004 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 167879007005 Protein of unknown function (DUF3135); Region: DUF3135; pfam11333 167879007006 HipA N-terminal domain; Region: Couple_hipA; pfam13657 167879007007 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 167879007008 HipA-like N-terminal domain; Region: HipA_N; pfam07805 167879007009 HipA-like C-terminal domain; Region: HipA_C; pfam07804 167879007010 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 167879007011 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 167879007012 non-specific DNA binding site [nucleotide binding]; other site 167879007013 salt bridge; other site 167879007014 sequence-specific DNA binding site [nucleotide binding]; other site 167879007015 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 167879007016 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 167879007017 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 167879007018 Protein export membrane protein; Region: SecD_SecF; cl14618 167879007019 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 167879007020 Family of unknown function (DUF633); Region: DUF633; pfam04816 167879007021 RecX family; Region: RecX; pfam02631 167879007022 Domain of unknown function (DUF3817); Region: DUF3817; pfam12823 167879007023 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 167879007024 active site 1 [active] 167879007025 dimer interface [polypeptide binding]; other site 167879007026 hexamer interface [polypeptide binding]; other site 167879007027 active site 2 [active] 167879007028 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 167879007029 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 167879007030 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 167879007031 C-terminal domain interface [polypeptide binding]; other site 167879007032 GSH binding site (G-site) [chemical binding]; other site 167879007033 dimer interface [polypeptide binding]; other site 167879007034 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 167879007035 N-terminal domain interface [polypeptide binding]; other site 167879007036 dimer interface [polypeptide binding]; other site 167879007037 substrate binding pocket (H-site) [chemical binding]; other site 167879007038 Transcriptional regulator [Transcription]; Region: LysR; COG0583 167879007039 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879007040 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 167879007041 putative effector binding pocket; other site 167879007042 dimerization interface [polypeptide binding]; other site 167879007043 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 167879007044 catalytic center binding site [active] 167879007045 ATP binding site [chemical binding]; other site 167879007046 Dihydroneopterin aldolase; Region: FolB; pfam02152 167879007047 active site 167879007048 pteridine reductase (PR), classical (c) SDRs; Region: PR_SDR_c; cd05357 167879007049 short chain dehydrogenase; Provisional; Region: PRK09134 167879007050 NADP binding site [chemical binding]; other site 167879007051 substrate binding pocket [chemical binding]; other site 167879007052 active site 167879007053 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 167879007054 GTP cyclohydrolase I; Provisional; Region: PLN03044 167879007055 homodecamer interface [polypeptide binding]; other site 167879007056 active site 167879007057 putative catalytic site residues [active] 167879007058 zinc binding site [ion binding]; other site 167879007059 GTP-CH-I/GFRP interaction surface; other site 167879007060 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 167879007061 active site 167879007062 metal binding site [ion binding]; metal-binding site 167879007063 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 167879007064 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 167879007065 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 167879007066 active site 167879007067 DNA binding site [nucleotide binding] 167879007068 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 167879007069 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 167879007070 Catalytic site [active] 167879007071 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 167879007072 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 167879007073 dimer interface [polypeptide binding]; other site 167879007074 active site residues [active] 167879007075 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 167879007076 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 167879007077 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 167879007078 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 167879007079 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 167879007080 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 167879007081 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 167879007082 putative active site [active] 167879007083 putative metal binding site [ion binding]; other site 167879007084 D-glutamate deacylase; Validated; Region: PRK09061 167879007085 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 167879007086 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 167879007087 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 167879007088 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_3; cd06237 167879007089 putative active site [active] 167879007090 Zn binding site [ion binding]; other site 167879007091 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 167879007092 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 167879007093 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 167879007094 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Uncharacterized Proteins with similarity to Ornithine and Diaminopimelate Decarboxylases; Region: PLPDE_III_ODC_DapDC_like_1; cd06836 167879007095 dimer interface [polypeptide binding]; other site 167879007096 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 167879007097 active site 167879007098 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 167879007099 catalytic residues [active] 167879007100 substrate binding site [chemical binding]; other site 167879007101 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 167879007102 Transcriptional regulator [Transcription]; Region: LysR; COG0583 167879007103 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879007104 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 167879007105 dimerization interface [polypeptide binding]; other site 167879007106 Thioredoxin; Region: Thioredoxin_4; pfam13462 167879007107 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 167879007108 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 167879007109 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 167879007110 Peptidase family M28; Region: Peptidase_M28; pfam04389 167879007111 metal binding site [ion binding]; metal-binding site 167879007112 TPR repeat; Region: TPR_11; pfam13414 167879007113 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 167879007114 binding surface 167879007115 TPR motif; other site 167879007116 TPR repeat; Region: TPR_11; pfam13414 167879007117 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 167879007118 TPR motif; other site 167879007119 Domain of unknown function (DUF3943); Region: DUF3943; pfam13084 167879007120 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 167879007121 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cl01109 167879007122 putative amphipathic alpha helix; other site 167879007123 Predicted amidohydrolase [General function prediction only]; Region: COG0388 167879007124 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 167879007125 active site 167879007126 catalytic triad [active] 167879007127 dimer interface [polypeptide binding]; other site 167879007128 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 167879007129 active site 167879007130 catalytic triad [active] 167879007131 dimer interface [polypeptide binding]; other site 167879007132 Protein of unknown function (DUF2899); Region: DUF2899; pfam11449 167879007133 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 167879007134 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 167879007135 dimer interface [polypeptide binding]; other site 167879007136 phosphorylation site [posttranslational modification] 167879007137 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 167879007138 ATP binding site [chemical binding]; other site 167879007139 Mg2+ binding site [ion binding]; other site 167879007140 G-X-G motif; other site 167879007141 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 167879007142 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 167879007143 active site 167879007144 phosphorylation site [posttranslational modification] 167879007145 intermolecular recognition site; other site 167879007146 dimerization interface [polypeptide binding]; other site 167879007147 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 167879007148 DNA binding site [nucleotide binding] 167879007149 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 167879007150 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 167879007151 Sulfatase; Region: Sulfatase; pfam00884 167879007152 putative metal dependent hydrolase; Provisional; Region: PRK11598 167879007153 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 167879007154 Sulfatase; Region: Sulfatase; pfam00884 167879007155 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 167879007156 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 167879007157 SurA N-terminal domain; Region: SurA_N; pfam09312 167879007158 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 167879007159 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 167879007160 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 167879007161 active site 167879007162 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 167879007163 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 167879007164 NAD binding site [chemical binding]; other site 167879007165 homodimer interface [polypeptide binding]; other site 167879007166 homotetramer interface [polypeptide binding]; other site 167879007167 active site 167879007168 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 167879007169 CoA-transferase family III; Region: CoA_transf_3; pfam02515 167879007170 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 167879007171 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 167879007172 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 167879007173 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 167879007174 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 167879007175 N-terminal plug; other site 167879007176 ligand-binding site [chemical binding]; other site 167879007177 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 167879007178 NADH(P)-binding; Region: NAD_binding_10; pfam13460 167879007179 NAD binding site [chemical binding]; other site 167879007180 substrate binding site [chemical binding]; other site 167879007181 putative active site [active] 167879007182 Arylamine N-acetyltransferase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NhoA; COG2162 167879007183 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 167879007184 EamA-like transporter family; Region: EamA; pfam00892 167879007185 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 167879007186 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 167879007187 ligand binding site [chemical binding]; other site 167879007188 flexible hinge region; other site 167879007189 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 167879007190 dimerization interface [polypeptide binding]; other site 167879007191 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 167879007192 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 167879007193 dimer interface [polypeptide binding]; other site 167879007194 putative CheW interface [polypeptide binding]; other site 167879007195 Domain of unknown function DUF302; Region: DUF302; pfam03625 167879007196 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 167879007197 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 167879007198 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 167879007199 Interphotoreceptor retinoid-binding protein; serine protease family S41; Region: Peptidase_S41_IRBP; cd07563 167879007200 active site triad [active] 167879007201 Protein of unknown function (DUF4019); Region: DUF4019; pfam13211 167879007202 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 167879007203 Transposase; Region: DEDD_Tnp_IS110; pfam01548 167879007204 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 167879007205 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 167879007206 ornithine cyclodeaminase; Validated; Region: PRK06141 167879007207 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 167879007208 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 167879007209 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 167879007210 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 167879007211 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 167879007212 C-terminal domain interface [polypeptide binding]; other site 167879007213 GSH binding site (G-site) [chemical binding]; other site 167879007214 dimer interface [polypeptide binding]; other site 167879007215 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 167879007216 N-terminal domain interface [polypeptide binding]; other site 167879007217 dimer interface [polypeptide binding]; other site 167879007218 substrate binding pocket (H-site) [chemical binding]; other site 167879007219 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 167879007220 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 167879007221 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 167879007222 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 167879007223 Coenzyme A binding pocket [chemical binding]; other site 167879007224 Domain of unknown function (DUF4267); Region: DUF4267; pfam14087 167879007225 seryl-tRNA synthetase; Provisional; Region: PRK05431 167879007226 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 167879007227 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 167879007228 dimer interface [polypeptide binding]; other site 167879007229 active site 167879007230 motif 1; other site 167879007231 motif 2; other site 167879007232 motif 3; other site 167879007233 CrcB-like protein; Region: CRCB; cl09114 167879007234 recombination factor protein RarA; Reviewed; Region: PRK13342 167879007235 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 167879007236 Walker A motif; other site 167879007237 ATP binding site [chemical binding]; other site 167879007238 Walker B motif; other site 167879007239 arginine finger; other site 167879007240 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 167879007241 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 167879007242 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 167879007243 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 167879007244 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 167879007245 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 167879007246 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 167879007247 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 167879007248 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 167879007249 putative DNA binding site [nucleotide binding]; other site 167879007250 putative Zn2+ binding site [ion binding]; other site 167879007251 AsnC family; Region: AsnC_trans_reg; pfam01037 167879007252 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 167879007253 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 167879007254 hexamer interface [polypeptide binding]; other site 167879007255 ligand binding site [chemical binding]; other site 167879007256 putative active site [active] 167879007257 NAD(P) binding site [chemical binding]; other site 167879007258 thioredoxin reductase; Provisional; Region: PRK10262 167879007259 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 167879007260 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 167879007261 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 167879007262 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 167879007263 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 167879007264 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 167879007265 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 167879007266 rRNA binding site [nucleotide binding]; other site 167879007267 predicted 30S ribosome binding site; other site 167879007268 Protein of unknown function (DUF3087); Region: DUF3087; pfam11286 167879007269 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 167879007270 AAA domain; Region: AAA_30; pfam13604 167879007271 Family description; Region: UvrD_C_2; pfam13538 167879007272 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 167879007273 Family description; Region: UvrD_C_2; pfam13538 167879007274 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 167879007275 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 167879007276 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 167879007277 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 167879007278 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 167879007279 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 167879007280 acyl-activating enzyme (AAE) consensus motif; other site 167879007281 AMP binding site [chemical binding]; other site 167879007282 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 167879007283 putative acyl-acceptor binding pocket; other site 167879007284 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 167879007285 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 167879007286 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 167879007287 Walker A/P-loop; other site 167879007288 ATP binding site [chemical binding]; other site 167879007289 Q-loop/lid; other site 167879007290 ABC transporter signature motif; other site 167879007291 Walker B; other site 167879007292 D-loop; other site 167879007293 H-loop/switch region; other site 167879007294 Predicted membrane protein [Function unknown]; Region: COG4818 167879007295 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 167879007296 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 167879007297 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 167879007298 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 167879007299 Protein of unknown function DUF58; Region: DUF58; pfam01882 167879007300 MoxR-like ATPases [General function prediction only]; Region: COG0714 167879007301 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 167879007302 Walker A motif; other site 167879007303 ATP binding site [chemical binding]; other site 167879007304 Walker B motif; other site 167879007305 arginine finger; other site 167879007306 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 167879007307 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 167879007308 Protein of unknown function (DUF3083); Region: DUF3083; pfam11281 167879007309 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 167879007310 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 167879007311 HAMP domain; Region: HAMP; pfam00672 167879007312 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 167879007313 dimer interface [polypeptide binding]; other site 167879007314 phosphorylation site [posttranslational modification] 167879007315 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 167879007316 ATP binding site [chemical binding]; other site 167879007317 Mg2+ binding site [ion binding]; other site 167879007318 G-X-G motif; other site 167879007319 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 167879007320 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 167879007321 active site 167879007322 phosphorylation site [posttranslational modification] 167879007323 intermolecular recognition site; other site 167879007324 dimerization interface [polypeptide binding]; other site 167879007325 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 167879007326 DNA binding site [nucleotide binding] 167879007327 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 167879007328 ApbE family; Region: ApbE; pfam02424 167879007329 Protein of unknown function (DUF3570); Region: DUF3570; pfam12094 167879007330 Domain of unknown function (DUF4266); Region: DUF4266; pfam14086 167879007331 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 167879007332 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 167879007333 catalytic residues [active] 167879007334 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 167879007335 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 167879007336 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 167879007337 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 167879007338 substrate binding pocket [chemical binding]; other site 167879007339 membrane-bound complex binding site; other site 167879007340 hinge residues; other site 167879007341 asparagine synthetase B; Provisional; Region: asnB; PRK09431 167879007342 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 167879007343 active site 167879007344 dimer interface [polypeptide binding]; other site 167879007345 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 167879007346 Ligand Binding Site [chemical binding]; other site 167879007347 Molecular Tunnel; other site 167879007348 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 167879007349 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 167879007350 active site 167879007351 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 167879007352 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 167879007353 Protein of unknown function (DUF3015); Region: DUF3015; pfam11220 167879007354 Cytochrome C' Region: Cytochrom_C_2; pfam01322 167879007355 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 167879007356 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 167879007357 quinone interaction residues [chemical binding]; other site 167879007358 active site 167879007359 catalytic residues [active] 167879007360 FMN binding site [chemical binding]; other site 167879007361 substrate binding site [chemical binding]; other site 167879007362 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 167879007363 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 167879007364 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 167879007365 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 167879007366 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 167879007367 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 167879007368 Protein of unknown function (DUF2835); Region: DUF2835; pfam11197 167879007369 aminopeptidase N; Provisional; Region: pepN; PRK14015 167879007370 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 167879007371 active site 167879007372 Zn binding site [ion binding]; other site 167879007373 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 167879007374 carboxy-terminal protease; Provisional; Region: PRK11186 167879007375 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 167879007376 protein binding site [polypeptide binding]; other site 167879007377 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 167879007378 Catalytic dyad [active] 167879007379 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 167879007380 ProP expression regulator; Provisional; Region: PRK04950 167879007381 ProQ/FINO family; Region: ProQ; smart00945 167879007382 putative RNA binding sites [nucleotide binding]; other site 167879007383 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 167879007384 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 167879007385 hypothetical protein; Provisional; Region: PRK03641 167879007386 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; pfam09829 167879007387 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 167879007388 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 167879007389 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 167879007390 DNA binding residues [nucleotide binding] 167879007391 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 167879007392 FecR protein; Region: FecR; pfam04773 167879007393 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 167879007394 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 167879007395 N-terminal plug; other site 167879007396 ligand-binding site [chemical binding]; other site 167879007397 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 167879007398 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 167879007399 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 167879007400 substrate binding site [chemical binding]; other site 167879007401 ligand binding site [chemical binding]; other site 167879007402 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 167879007403 substrate binding site [chemical binding]; other site 167879007404 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 167879007405 Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS) catalyzes...; Region: Ec2MCS_like; cd06108 167879007406 dimer interface [polypeptide binding]; other site 167879007407 active site 167879007408 citrylCoA binding site [chemical binding]; other site 167879007409 oxalacetate/citrate binding site [chemical binding]; other site 167879007410 coenzyme A binding site [chemical binding]; other site 167879007411 catalytic triad [active] 167879007412 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 167879007413 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 167879007414 tetramer interface [polypeptide binding]; other site 167879007415 active site 167879007416 Mg2+/Mn2+ binding site [ion binding]; other site 167879007417 Transcriptional regulators [Transcription]; Region: GntR; COG1802 167879007418 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 167879007419 DNA-binding site [nucleotide binding]; DNA binding site 167879007420 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 167879007421 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 167879007422 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_1; cd08352 167879007423 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 167879007424 putative metal binding site [ion binding]; other site 167879007425 hypothetical protein; Provisional; Region: PRK10279 167879007426 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 167879007427 active site 167879007428 nucleophile elbow; other site 167879007429 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; pfam04828 167879007430 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 167879007431 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 167879007432 phosphate binding site [ion binding]; other site 167879007433 putative substrate binding pocket [chemical binding]; other site 167879007434 dimer interface [polypeptide binding]; other site 167879007435 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 167879007436 trimer interface [polypeptide binding]; other site 167879007437 active site 167879007438 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 167879007439 Walker A motif; other site 167879007440 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 167879007441 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 167879007442 active site 167879007443 HIGH motif; other site 167879007444 KMSKS motif; other site 167879007445 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 167879007446 tRNA binding surface [nucleotide binding]; other site 167879007447 anticodon binding site; other site 167879007448 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 167879007449 dimer interface [polypeptide binding]; other site 167879007450 putative tRNA-binding site [nucleotide binding]; other site 167879007451 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 167879007452 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 167879007453 homodimer interaction site [polypeptide binding]; other site 167879007454 cofactor binding site; other site 167879007455 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_3; cd09620 167879007456 putative ligand binding site [chemical binding]; other site 167879007457 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 167879007458 S-adenosylmethionine binding site [chemical binding]; other site 167879007459 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 167879007460 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 167879007461 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 167879007462 AAA domain; Region: AAA_23; pfam13476 167879007463 Walker A/P-loop; other site 167879007464 ATP binding site [chemical binding]; other site 167879007465 Q-loop/lid; other site 167879007466 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 167879007467 ABC transporter signature motif; other site 167879007468 Walker B; other site 167879007469 D-loop; other site 167879007470 H-loop/switch region; other site 167879007471 exonuclease subunit SbcD; Provisional; Region: PRK10966 167879007472 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 167879007473 active site 167879007474 metal binding site [ion binding]; metal-binding site 167879007475 DNA binding site [nucleotide binding] 167879007476 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 167879007477 Transcriptional regulator [Transcription]; Region: LysR; COG0583 167879007478 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879007479 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 167879007480 dimerization interface [polypeptide binding]; other site 167879007481 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 167879007482 Major Facilitator Superfamily; Region: MFS_1; pfam07690 167879007483 putative substrate translocation pore; other site 167879007484 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 167879007485 AzlC protein; Region: AzlC; pfam03591 167879007486 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 167879007487 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 167879007488 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 167879007489 putative transposase OrfB; Reviewed; Region: PHA02517 167879007490 HTH-like domain; Region: HTH_21; pfam13276 167879007491 Integrase core domain; Region: rve; pfam00665 167879007492 Integrase core domain; Region: rve_3; pfam13683 167879007493 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 167879007494 Transposase; Region: HTH_Tnp_1; cl17663 167879007495 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 167879007496 EcsC protein family; Region: EcsC; pfam12787 167879007497 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 167879007498 GST_N family, Beta etherase LigE subfamily; composed of proteins similar to Sphingomonas paucimobilis beta etherase, LigE, a GST-like protein that catalyzes the cleavage of the beta-aryl ether linkages present in low-moleculer weight lignins using GSH as...; Region: GST_N_etherase_LigE; cd03038 167879007499 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 167879007500 putative C-terminal domain interface [polypeptide binding]; other site 167879007501 putative GSH binding site (G-site) [chemical binding]; other site 167879007502 putative dimer interface [polypeptide binding]; other site 167879007503 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 167879007504 N-terminal domain interface [polypeptide binding]; other site 167879007505 dimer interface [polypeptide binding]; other site 167879007506 substrate binding pocket (H-site) [chemical binding]; other site 167879007507 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 167879007508 Walker A/P-loop; other site 167879007509 ATP binding site [chemical binding]; other site 167879007510 Predicted nucleotide-binding protein containing TIR-like domain; Region: TIR-like; cl17861 167879007511 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 167879007512 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 167879007513 HlyD family secretion protein; Region: HlyD_3; pfam13437 167879007514 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 167879007515 active site 167879007516 catalytic residues [active] 167879007517 PA_VapT_like: Protease-associated domain containing proteins like VapT from Vibrio metschnikovii strain RH530. This group contains various PA domain-containing proteins similar to V. metschnikovii VapT, including the serine alkaline protease SapSh from...; Region: PA_VapT_like; cd04817 167879007518 PA/subtilisin-like domain interface [polypeptide binding]; other site 167879007519 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 167879007520 catalytic residues [active] 167879007521 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 167879007522 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 167879007523 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; cl17304 167879007524 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 167879007525 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 167879007526 Urea transporter; Region: UT; cl01829 167879007527 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 167879007528 diaminopimelate decarboxylase; Region: lysA; TIGR01048 167879007529 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme MccE; Region: PLPDE_III_MccE_like; cd06841 167879007530 dimer interface [polypeptide binding]; other site 167879007531 active site 167879007532 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 167879007533 catalytic residues [active] 167879007534 substrate binding site [chemical binding]; other site 167879007535 ATP-grasp domain; Region: ATP-grasp_4; cl17255 167879007536 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 167879007537 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 167879007538 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879007539 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879007540 metal binding site [ion binding]; metal-binding site 167879007541 active site 167879007542 I-site; other site 167879007543 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 167879007544 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 167879007545 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 167879007546 putative active site [active] 167879007547 alanine racemase; Reviewed; Region: alr; PRK00053 167879007548 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 167879007549 active site 167879007550 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 167879007551 substrate binding site [chemical binding]; other site 167879007552 catalytic residues [active] 167879007553 dimer interface [polypeptide binding]; other site 167879007554 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 167879007555 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 167879007556 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 167879007557 Ligand Binding Site [chemical binding]; other site 167879007558 excinuclease ABC subunit B; Provisional; Region: PRK05298 167879007559 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 167879007560 ATP binding site [chemical binding]; other site 167879007561 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 167879007562 nucleotide binding region [chemical binding]; other site 167879007563 ATP-binding site [chemical binding]; other site 167879007564 Ultra-violet resistance protein B; Region: UvrB; pfam12344 167879007565 UvrB/uvrC motif; Region: UVR; pfam02151 167879007566 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_2; cd13149 167879007567 putative efflux protein, MATE family; Region: matE; TIGR00797 167879007568 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 167879007569 Clp amino terminal domain; Region: Clp_N; pfam02861 167879007570 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 167879007571 Walker A motif; other site 167879007572 ATP binding site [chemical binding]; other site 167879007573 Walker B motif; other site 167879007574 arginine finger; other site 167879007575 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 167879007576 Walker A motif; other site 167879007577 ATP binding site [chemical binding]; other site 167879007578 Walker B motif; other site 167879007579 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 167879007580 Uncharacterized conserved protein [Function unknown]; Region: COG2127 167879007581 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 167879007582 DNA-binding site [nucleotide binding]; DNA binding site 167879007583 RNA-binding motif; other site 167879007584 isocitrate dehydrogenase; Validated; Region: PRK07362 167879007585 isocitrate dehydrogenase; Reviewed; Region: PRK07006 167879007586 isocitrate dehydrogenase, NADP-dependent, monomeric type; Region: monomer_idh; TIGR00178 167879007587 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 167879007588 23S rRNA pseudouridine synthase E; Provisional; Region: PRK11394 167879007589 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 167879007590 active site 167879007591 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 167879007592 nudix motif; other site 167879007593 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 167879007594 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 167879007595 putative lysogenization regulator; Reviewed; Region: PRK00218 167879007596 adenylosuccinate lyase; Provisional; Region: PRK09285 167879007597 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 167879007598 tetramer interface [polypeptide binding]; other site 167879007599 active site 167879007600 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 167879007601 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 167879007602 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 167879007603 NAD binding site [chemical binding]; other site 167879007604 Phe binding site; other site 167879007605 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 167879007606 ATP binding site [chemical binding]; other site 167879007607 active site 167879007608 substrate binding site [chemical binding]; other site 167879007609 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 167879007610 23S rRNA binding site [nucleotide binding]; other site 167879007611 L21 binding site [polypeptide binding]; other site 167879007612 L13 binding site [polypeptide binding]; other site 167879007613 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 167879007614 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 167879007615 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 167879007616 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 167879007617 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 167879007618 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 167879007619 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 167879007620 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 167879007621 active site 167879007622 dimer interface [polypeptide binding]; other site 167879007623 motif 1; other site 167879007624 motif 2; other site 167879007625 motif 3; other site 167879007626 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 167879007627 anticodon binding site; other site 167879007628 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 167879007629 putative lipid binding site [chemical binding]; other site 167879007630 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 167879007631 Ferredoxin [Energy production and conversion]; Region: COG1146 167879007632 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 167879007633 Phosphotransferase enzyme family; Region: APH; pfam01636 167879007634 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 167879007635 active site 167879007636 ATP binding site [chemical binding]; other site 167879007637 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 167879007638 substrate binding site [chemical binding]; other site 167879007639 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 167879007640 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 167879007641 multidrug efflux protein; Reviewed; Region: PRK01766 167879007642 cation binding site [ion binding]; other site 167879007643 integrase; Provisional; Region: PRK09692 167879007644 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 167879007645 active site 167879007646 Int/Topo IB signature motif; other site 167879007647 Uncharacterized protein family UPF0102; Region: UPF0102; cl00516 167879007648 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 167879007649 metal binding site [ion binding]; metal-binding site 167879007650 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 167879007651 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 167879007652 active site 167879007653 Glutamine amidotransferase domain; Region: GATase_7; pfam13537 167879007654 active site 167879007655 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 167879007656 Ligand Binding Site [chemical binding]; other site 167879007657 Molecular Tunnel; other site 167879007658 N-acetyltransferase; Region: Acetyltransf_2; cl00949 167879007659 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 167879007660 putative active site [active] 167879007661 putative metal binding site [ion binding]; other site 167879007662 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 167879007663 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 167879007664 active site 167879007665 homodimer interface [polypeptide binding]; other site 167879007666 SAM binding site [chemical binding]; other site 167879007667 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 167879007668 Uncharacterized conserved protein [Function unknown]; Region: COG1262 167879007669 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 167879007670 S-adenosylmethionine binding site [chemical binding]; other site 167879007671 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 167879007672 Coenzyme A binding pocket [chemical binding]; other site 167879007673 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 167879007674 homodecamer interface [polypeptide binding]; other site 167879007675 GTP cyclohydrolase I; Provisional; Region: PLN03044 167879007676 active site 167879007677 putative catalytic site residues [active] 167879007678 zinc binding site [ion binding]; other site 167879007679 GTP-CH-I/GFRP interaction surface; other site 167879007680 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 167879007681 active site 167879007682 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 167879007683 DGQHR domain; Region: DGQHR; TIGR03187 167879007684 DNA-sulfur modification-associated; Region: DndB; cl17621 167879007685 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 167879007686 Ligand Binding Site [chemical binding]; other site 167879007687 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 167879007688 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 167879007689 PLD-like domain; Region: PLDc_2; pfam13091 167879007690 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 167879007691 putative active site [active] 167879007692 catalytic site [active] 167879007693 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 167879007694 ATP binding site [chemical binding]; other site 167879007695 putative Mg++ binding site [ion binding]; other site 167879007696 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 167879007697 nucleotide binding region [chemical binding]; other site 167879007698 ATP-binding site [chemical binding]; other site 167879007699 DEAD-like helicases superfamily; Region: DEXDc; smart00487 167879007700 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 167879007701 ATP binding site [chemical binding]; other site 167879007702 putative Mg++ binding site [ion binding]; other site 167879007703 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 167879007704 nucleotide binding region [chemical binding]; other site 167879007705 ATP-binding site [chemical binding]; other site 167879007706 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 167879007707 ATP binding site [chemical binding]; other site 167879007708 putative Mg++ binding site [ion binding]; other site 167879007709 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 167879007710 nucleotide binding region [chemical binding]; other site 167879007711 ATP-binding site [chemical binding]; other site 167879007712 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 167879007713 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 167879007714 Protein of unknown function (DUF2787); Region: DUF2787; pfam10980 167879007715 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 167879007716 hypothetical protein; Reviewed; Region: PRK00024 167879007717 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 167879007718 MPN+ (JAMM) motif; other site 167879007719 Zinc-binding site [ion binding]; other site 167879007720 Protein of unknown function (DUF2787); Region: DUF2787; pfam10980 167879007721 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 167879007722 active site 167879007723 DNA binding site [nucleotide binding] 167879007724 Int/Topo IB signature motif; other site 167879007725 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 167879007726 AAA domain; Region: AAA_30; pfam13604 167879007727 Family description; Region: UvrD_C_2; pfam13538 167879007728 putative transposase OrfB; Reviewed; Region: PHA02517 167879007729 HTH-like domain; Region: HTH_21; pfam13276 167879007730 Integrase core domain; Region: rve; pfam00665 167879007731 Integrase core domain; Region: rve_3; pfam13683 167879007732 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 167879007733 Transposase; Region: HTH_Tnp_1; pfam01527 167879007734 putative transposase OrfB; Reviewed; Region: PHA02517 167879007735 HTH-like domain; Region: HTH_21; pfam13276 167879007736 Integrase core domain; Region: rve; pfam00665 167879007737 Integrase core domain; Region: rve_3; pfam13683 167879007738 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 167879007739 Transposase; Region: HTH_Tnp_1; cl17663 167879007740 RDD family; Region: RDD; pfam06271 167879007741 CHRD domain; Region: CHRD; pfam07452 167879007742 PEP-CTERM motif; Region: VPEP; pfam07589 167879007743 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 167879007744 putative substrate translocation pore; other site 167879007745 FOG: CBS domain [General function prediction only]; Region: COG0517 167879007746 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_16; cd04629 167879007747 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 167879007748 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879007749 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 167879007750 dimerization interface [polypeptide binding]; other site 167879007751 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 167879007752 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 167879007753 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 167879007754 RNA binding surface [nucleotide binding]; other site 167879007755 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 167879007756 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 167879007757 Ligand Binding Site [chemical binding]; other site 167879007758 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 167879007759 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 167879007760 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 167879007761 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 167879007762 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 167879007763 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 167879007764 Walker A/P-loop; other site 167879007765 ATP binding site [chemical binding]; other site 167879007766 Q-loop/lid; other site 167879007767 ABC transporter signature motif; other site 167879007768 Walker B; other site 167879007769 D-loop; other site 167879007770 H-loop/switch region; other site 167879007771 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 167879007772 Helix-turn-helix domain; Region: HTH_18; pfam12833 167879007773 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 167879007774 Sulfatase; Region: Sulfatase; pfam00884 167879007775 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 167879007776 Sulfatase; Region: Sulfatase; pfam00884 167879007777 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 167879007778 Sulfatase; Region: Sulfatase; pfam00884 167879007779 Uncharacterized conserved protein [Function unknown]; Region: COG1262 167879007780 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 167879007781 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 167879007782 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 167879007783 heme-binding residues [chemical binding]; other site 167879007784 HEAT repeats; Region: HEAT_2; pfam13646 167879007785 TPR repeat; Region: TPR_11; pfam13414 167879007786 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 167879007787 binding surface 167879007788 TPR motif; other site 167879007789 MoxR-like ATPases [General function prediction only]; Region: COG0714 167879007790 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 167879007791 Walker A motif; other site 167879007792 ATP binding site [chemical binding]; other site 167879007793 Walker B motif; other site 167879007794 arginine finger; other site 167879007795 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 167879007796 Protein of unknown function DUF58; Region: DUF58; pfam01882 167879007797 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 167879007798 metal ion-dependent adhesion site (MIDAS); other site 167879007799 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 167879007800 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 167879007801 metal ion-dependent adhesion site (MIDAS); other site 167879007802 Oxygen tolerance; Region: BatD; pfam13584 167879007803 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 167879007804 IHF dimer interface [polypeptide binding]; other site 167879007805 IHF - DNA interface [nucleotide binding]; other site 167879007806 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 167879007807 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 167879007808 putative tRNA-binding site [nucleotide binding]; other site 167879007809 B3/4 domain; Region: B3_4; pfam03483 167879007810 tRNA synthetase B5 domain; Region: B5; smart00874 167879007811 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 167879007812 dimer interface [polypeptide binding]; other site 167879007813 motif 1; other site 167879007814 motif 3; other site 167879007815 motif 2; other site 167879007816 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 167879007817 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 167879007818 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 167879007819 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 167879007820 dimer interface [polypeptide binding]; other site 167879007821 motif 1; other site 167879007822 active site 167879007823 motif 2; other site 167879007824 motif 3; other site 167879007825 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 167879007826 FAD binding domain; Region: FAD_binding_4; pfam01565 167879007827 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 167879007828 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 167879007829 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 167879007830 ATP-grasp domain; Region: ATP-grasp_4; cl17255 167879007831 ATP-grasp domain; Region: ATP-grasp_4; cl17255 167879007832 ATP-grasp domain; Region: ATP-grasp_4; cl17255 167879007833 DinB superfamily; Region: DinB_2; pfam12867 167879007834 phosphoenolpyruvate synthase; Validated; Region: PRK06464 167879007835 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 167879007836 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 167879007837 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 167879007838 PEP synthetase regulatory protein; Provisional; Region: PRK05339 167879007839 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12756 167879007840 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 167879007841 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 167879007842 Low molecular weight phosphatase family; Region: LMWPc; cd00115 167879007843 active site 167879007844 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 167879007845 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 167879007846 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 167879007847 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 167879007848 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 167879007849 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 167879007850 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 167879007851 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 167879007852 Predicted periplasmic protein [Function unknown]; Region: COG3904 167879007853 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 167879007854 active site 167879007855 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 167879007856 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 167879007857 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 167879007858 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 167879007859 HlyD family secretion protein; Region: HlyD_3; pfam13437 167879007860 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 167879007861 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 167879007862 Sulfatase; Region: Sulfatase; pfam00884 167879007863 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 167879007864 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879007865 The C-terminal substrate binding domain of LysR-type transcriptional regulator LeuO, an activator of leucine synthesis operon, contains the type 2 periplasmic binding fold; Region: PBP2_LeuO; cd08466 167879007866 putative substrate binding pocket [chemical binding]; other site 167879007867 putative dimerization interface [polypeptide binding]; other site 167879007868 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 167879007869 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 167879007870 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 167879007871 PLD-like domain; Region: PLDc_2; pfam13091 167879007872 putative active site [active] 167879007873 catalytic site [active] 167879007874 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 167879007875 PLD-like domain; Region: PLDc_2; pfam13091 167879007876 putative active site [active] 167879007877 catalytic site [active] 167879007878 Protein of unknown function (DUF2913); Region: DUF2913; pfam11140 167879007879 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 167879007880 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 167879007881 dimer interface [polypeptide binding]; other site 167879007882 putative CheW interface [polypeptide binding]; other site 167879007883 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 167879007884 sec-independent translocase; Provisional; Region: PRK01770 167879007885 twin arginine translocase protein A; Provisional; Region: tatA; PRK04598 167879007886 Gram-negative porin; Region: Porin_4; pfam13609 167879007887 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 167879007888 substrate binding site [chemical binding]; other site 167879007889 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 167879007890 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 167879007891 Walker A motif; other site 167879007892 ATP binding site [chemical binding]; other site 167879007893 Walker B motif; other site 167879007894 arginine finger; other site 167879007895 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 167879007896 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 167879007897 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 167879007898 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 167879007899 alpha subunit interface [polypeptide binding]; other site 167879007900 TPP binding site [chemical binding]; other site 167879007901 heterodimer interface [polypeptide binding]; other site 167879007902 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 167879007903 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 167879007904 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 167879007905 tetramer interface [polypeptide binding]; other site 167879007906 TPP-binding site [chemical binding]; other site 167879007907 heterodimer interface [polypeptide binding]; other site 167879007908 phosphorylation loop region [posttranslational modification] 167879007909 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 167879007910 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 167879007911 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 167879007912 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 167879007913 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 167879007914 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 167879007915 active site 167879007916 metal binding site [ion binding]; metal-binding site 167879007917 Transposase; Region: DEDD_Tnp_IS110; pfam01548 167879007918 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 167879007919 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 167879007920 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 167879007921 active site 167879007922 phosphorylation site [posttranslational modification] 167879007923 intermolecular recognition site; other site 167879007924 dimerization interface [polypeptide binding]; other site 167879007925 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 167879007926 DNA binding site [nucleotide binding] 167879007927 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 167879007928 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 167879007929 dimer interface [polypeptide binding]; other site 167879007930 phosphorylation site [posttranslational modification] 167879007931 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 167879007932 ATP binding site [chemical binding]; other site 167879007933 Mg2+ binding site [ion binding]; other site 167879007934 G-X-G motif; other site 167879007935 Peptide methionine sulfoxide reductase; Region: PMSR; pfam01625 167879007936 methionine sulfoxide reductase A; Provisional; Region: PRK14054 167879007937 methionine sulfoxide reductase B; Provisional; Region: PRK00222 167879007938 SelR domain; Region: SelR; pfam01641 167879007939 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 167879007940 Cupin; Region: Cupin_6; pfam12852 167879007941 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 167879007942 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 167879007943 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 167879007944 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 167879007945 Paraquat-inducible protein A; Region: PqiA; pfam04403 167879007946 Paraquat-inducible protein A; Region: PqiA; pfam04403 167879007947 paraquat-inducible protein B; Provisional; Region: PRK10807 167879007948 mce related protein; Region: MCE; pfam02470 167879007949 mce related protein; Region: MCE; pfam02470 167879007950 Protein of unknown function (DUF330); Region: DUF330; pfam03886 167879007951 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 167879007952 ABC-2 type transporter; Region: ABC2_membrane; cl17235 167879007953 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 167879007954 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 167879007955 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 167879007956 Walker A/P-loop; other site 167879007957 ATP binding site [chemical binding]; other site 167879007958 Q-loop/lid; other site 167879007959 ABC transporter signature motif; other site 167879007960 Walker B; other site 167879007961 D-loop; other site 167879007962 H-loop/switch region; other site 167879007963 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 167879007964 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 167879007965 Amidohydrolase; Region: Amidohydro_4; pfam13147 167879007966 active site 167879007967 Transcriptional regulator [Transcription]; Region: LysR; COG0583 167879007968 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879007969 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 167879007970 putative effector binding pocket; other site 167879007971 dimerization interface [polypeptide binding]; other site 167879007972 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 167879007973 FOG: CBS domain [General function prediction only]; Region: COG0517 167879007974 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with a PAS domain, a GGDEF (DiGuanylate-Cyclase (DGC) domain, and a DUF1 domain downstream. PAS domains have been found to bind ligands, and to act...; Region: CBS_pair_PAS_GGDEF_DUF1_assoc; cd04611 167879007975 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with a PAS domain, a GGDEF (DiGuanylate-Cyclase (DGC) domain, and a DUF1 domain downstream. PAS domains have been found to bind ligands, and to act...; Region: CBS_pair_PAS_GGDEF_DUF1_assoc; cd04611 167879007976 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; cd00130 167879007977 PAS domain; Region: PAS_9; pfam13426 167879007978 putative active site [active] 167879007979 heme pocket [chemical binding]; other site 167879007980 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879007981 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879007982 metal binding site [ion binding]; metal-binding site 167879007983 active site 167879007984 I-site; other site 167879007985 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 167879007986 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 167879007987 putative deacylase active site [active] 167879007988 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 167879007989 PA_M28_1_2: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 2. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic...; Region: PA_M28_1_2; cd04821 167879007990 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 167879007991 PA/protease or protease-like domain interface [polypeptide binding]; other site 167879007992 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_1; cd05660 167879007993 metal binding site [ion binding]; metal-binding site 167879007994 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 167879007995 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 167879007996 CoenzymeA binding site [chemical binding]; other site 167879007997 subunit interaction site [polypeptide binding]; other site 167879007998 PHB binding site; other site 167879007999 SnoaL-like domain; Region: SnoaL_3; pfam13474 167879008000 thiopurine S-methyltransferase, Se/Te detoxification family; Region: TMPT_Se_Te; TIGR03840 167879008001 DinB family; Region: DinB; cl17821 167879008002 DinB superfamily; Region: DinB_2; pfam12867 167879008003 2-Nitropropane dioxygenase (NPD)-like domain, associated with the (acyl-carrier-protein) S-malonyltransferase FabD. NPD is part of the nitroalkaneoxidizing enzyme family, that catalyzes oxidative denitrification of nitroalkanes to their corresponding...; Region: NPD_FabD; cd04742 167879008004 FMN binding site [chemical binding]; other site 167879008005 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 167879008006 substrate binding site [chemical binding]; other site 167879008007 putative catalytic residue [active] 167879008008 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 167879008009 GIY-YIG motif/motif A; other site 167879008010 putative active site [active] 167879008011 putative metal binding site [ion binding]; other site 167879008012 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 167879008013 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 167879008014 active site 167879008015 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 167879008016 active site 167879008017 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 167879008018 active site 2 [active] 167879008019 dimer interface [polypeptide binding]; other site 167879008020 active site 1 [active] 167879008021 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 167879008022 active site 1 [active] 167879008023 dimer interface [polypeptide binding]; other site 167879008024 active site 2 [active] 167879008025 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 167879008026 Acyl transferase domain; Region: Acyl_transf_1; cl08282 167879008027 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 167879008028 3-oxoacyl-acyl carrier protein synthase; Provisional; Region: PTZ00050 167879008029 active site 167879008030 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 167879008031 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 167879008032 Phosphopantetheine attachment site; Region: PP-binding; cl09936 167879008033 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 167879008034 Phosphopantetheine attachment site; Region: PP-binding; cl09936 167879008035 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 167879008036 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 167879008037 putative NADP binding site [chemical binding]; other site 167879008038 active site 167879008039 Winged helix-turn helix; Region: HTH_29; pfam13551 167879008040 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 167879008041 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 167879008042 Transcriptional regulator [Transcription]; Region: LysR; COG0583 167879008043 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879008044 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_3; cd08461 167879008045 putative substrate binding pocket [chemical binding]; other site 167879008046 putative dimerization interface [polypeptide binding]; other site 167879008047 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 167879008048 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 167879008049 FMN binding site [chemical binding]; other site 167879008050 active site 167879008051 substrate binding site [chemical binding]; other site 167879008052 catalytic residue [active] 167879008053 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 167879008054 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 167879008055 dimer interface [polypeptide binding]; other site 167879008056 active site 167879008057 metal binding site [ion binding]; metal-binding site 167879008058 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 167879008059 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 167879008060 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 167879008061 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 167879008062 Predicted phosphoesterases, related to the Icc protein [General function prediction only]; Region: COG2129 167879008063 active site 167879008064 metal binding site [ion binding]; metal-binding site 167879008065 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 167879008066 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 167879008067 Transposase; Region: HTH_Tnp_1; cl17663 167879008068 putative transposase OrfB; Reviewed; Region: PHA02517 167879008069 HTH-like domain; Region: HTH_21; pfam13276 167879008070 Integrase core domain; Region: rve; pfam00665 167879008071 Integrase core domain; Region: rve_3; pfam13683 167879008072 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 167879008073 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 167879008074 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 167879008075 Coenzyme A binding pocket [chemical binding]; other site 167879008076 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 167879008077 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 167879008078 motif II; other site 167879008079 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 167879008080 putative uracil binding site [chemical binding]; other site 167879008081 putative active site [active] 167879008082 Bacterial protein of unknown function (DUF925); Region: DUF925; pfam06042 167879008083 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14192 167879008084 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 167879008085 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 167879008086 homodimer interface [polypeptide binding]; other site 167879008087 NADP binding site [chemical binding]; other site 167879008088 substrate binding site [chemical binding]; other site 167879008089 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3602 167879008090 ACT domain; Region: ACT_3; pfam10000 167879008091 Family description; Region: ACT_7; pfam13840 167879008092 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 167879008093 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 167879008094 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 167879008095 DNA binding residues [nucleotide binding] 167879008096 putative dimer interface [polypeptide binding]; other site 167879008097 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 167879008098 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 167879008099 LysE type translocator; Region: LysE; cl00565 167879008100 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 167879008101 Predicted membrane protein [Function unknown]; Region: COG1971 167879008102 Domain of unknown function DUF; Region: DUF204; pfam02659 167879008103 Domain of unknown function DUF; Region: DUF204; pfam02659 167879008104 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 167879008105 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 167879008106 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 167879008107 active site residue [active] 167879008108 MFS_1 like family; Region: MFS_1_like; pfam12832 167879008109 Major Facilitator Superfamily; Region: MFS_1; pfam07690 167879008110 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 167879008111 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 167879008112 Tetramer interface [polypeptide binding]; other site 167879008113 active site 167879008114 FMN-binding site [chemical binding]; other site 167879008115 HemK family putative methylases; Region: hemK_fam; TIGR00536 167879008116 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 167879008117 S-adenosylmethionine binding site [chemical binding]; other site 167879008118 hypothetical protein; Provisional; Region: PRK04946 167879008119 Smr domain; Region: Smr; pfam01713 167879008120 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 167879008121 catalytic core [active] 167879008122 Secreted/periplasmic Zn-dependent peptidases, insulinase-like [Posttranslational modification, protein turnover, chaperones]; Region: Ptr; COG1025 167879008123 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 167879008124 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 167879008125 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 167879008126 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 167879008127 substrate binding site [chemical binding]; other site 167879008128 oxyanion hole (OAH) forming residues; other site 167879008129 trimer interface [polypeptide binding]; other site 167879008130 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 167879008131 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 167879008132 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 167879008133 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 167879008134 dimer interface [polypeptide binding]; other site 167879008135 active site 167879008136 MoxR-like ATPases [General function prediction only]; Region: COG0714 167879008137 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 167879008138 Walker A motif; other site 167879008139 ATP binding site [chemical binding]; other site 167879008140 Walker B motif; other site 167879008141 arginine finger; other site 167879008142 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 167879008143 Protein of unknown function DUF58; Region: DUF58; pfam01882 167879008144 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 167879008145 von Willebrand factor type A domain; Region: VWA_2; pfam13519 167879008146 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 167879008147 Tetratricopeptide repeat; Region: TPR_16; pfam13432 167879008148 TPR motif; other site 167879008149 binding surface 167879008150 Oxygen tolerance; Region: BatD; pfam13584 167879008151 RNA polymerase sigma factor; Provisional; Region: PRK12517 167879008152 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 167879008153 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 167879008154 DNA binding residues [nucleotide binding] 167879008155 Protein of unknown function (DUF3379); Region: DUF3379; pfam11859 167879008156 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 167879008157 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 167879008158 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 167879008159 Ribosomal S4P (gammaproteobacterial); Region: Ribosomal_S4Pg; pfam11993 167879008160 HAMP domain; Region: HAMP; pfam00672 167879008161 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 167879008162 dimer interface [polypeptide binding]; other site 167879008163 phosphorylation site [posttranslational modification] 167879008164 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 167879008165 ATP binding site [chemical binding]; other site 167879008166 Mg2+ binding site [ion binding]; other site 167879008167 G-X-G motif; other site 167879008168 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 167879008169 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 167879008170 active site 167879008171 phosphorylation site [posttranslational modification] 167879008172 intermolecular recognition site; other site 167879008173 dimerization interface [polypeptide binding]; other site 167879008174 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 167879008175 DNA binding site [nucleotide binding] 167879008176 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 167879008177 putative catalytic site [active] 167879008178 putative phosphate binding site [ion binding]; other site 167879008179 active site 167879008180 metal binding site A [ion binding]; metal-binding site 167879008181 DNA binding site [nucleotide binding] 167879008182 putative AP binding site [nucleotide binding]; other site 167879008183 putative metal binding site B [ion binding]; other site 167879008184 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 167879008185 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 167879008186 S-adenosylmethionine binding site [chemical binding]; other site 167879008187 Protein of unknown function, DUF412; Region: DUF412; cl01183 167879008188 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 167879008189 propionate/acetate kinase; Provisional; Region: PRK12379 167879008190 phosphate acetyltransferase; Reviewed; Region: PRK05632 167879008191 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 167879008192 DRTGG domain; Region: DRTGG; pfam07085 167879008193 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 167879008194 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 167879008195 ArsC family; Region: ArsC; pfam03960 167879008196 putative catalytic residues [active] 167879008197 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 167879008198 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 167879008199 metal binding site [ion binding]; metal-binding site 167879008200 dimer interface [polypeptide binding]; other site 167879008201 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 167879008202 lipoprotein; Provisional; Region: PRK11679 167879008203 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 167879008204 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 167879008205 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 167879008206 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 167879008207 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 167879008208 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 167879008209 catalytic triad [active] 167879008210 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 167879008211 Domain of unknown function DUF20; Region: UPF0118; pfam01594 167879008212 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cl00436 167879008213 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 167879008214 Peptidase family M48; Region: Peptidase_M48; cl12018 167879008215 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 167879008216 binding surface 167879008217 TPR motif; other site 167879008218 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 167879008219 ArsC family; Region: ArsC; pfam03960 167879008220 catalytic residues [active] 167879008221 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 167879008222 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 167879008223 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 167879008224 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 167879008225 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 167879008226 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 167879008227 dimerization interface [polypeptide binding]; other site 167879008228 putative ATP binding site [chemical binding]; other site 167879008229 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 167879008230 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 167879008231 active site 167879008232 substrate binding site [chemical binding]; other site 167879008233 cosubstrate binding site; other site 167879008234 catalytic site [active] 167879008235 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 167879008236 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 167879008237 hypothetical protein; Provisional; Region: PRK01254 167879008238 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 167879008239 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 167879008240 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 167879008241 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 167879008242 Walker A/P-loop; other site 167879008243 ATP binding site [chemical binding]; other site 167879008244 Q-loop/lid; other site 167879008245 ABC transporter signature motif; other site 167879008246 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 167879008247 Walker B; other site 167879008248 D-loop; other site 167879008249 H-loop/switch region; other site 167879008250 ABC transporter; Region: ABC_tran_2; pfam12848 167879008251 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 167879008252 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 167879008253 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 167879008254 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 167879008255 active site 167879008256 FMN binding site [chemical binding]; other site 167879008257 substrate binding site [chemical binding]; other site 167879008258 3Fe-4S cluster binding site [ion binding]; other site 167879008259 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 167879008260 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39G; cd02423 167879008261 putative active site [active] 167879008262 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 167879008263 DNA binding site [nucleotide binding] 167879008264 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; pfam00486 167879008265 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 167879008266 DEAD-like helicases superfamily; Region: DEXDc; smart00487 167879008267 ATP binding site [chemical binding]; other site 167879008268 Mg++ binding site [ion binding]; other site 167879008269 motif III; other site 167879008270 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 167879008271 nucleotide binding region [chemical binding]; other site 167879008272 ATP-binding site [chemical binding]; other site 167879008273 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 167879008274 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 167879008275 active site 167879008276 HIGH motif; other site 167879008277 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 167879008278 active site 167879008279 KMSKS motif; other site 167879008280 Surface antigen; Region: Bac_surface_Ag; pfam01103 167879008281 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 167879008282 Domain of unknown function (DUF4317); Region: DUF4317; pfam14199 167879008283 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 167879008284 RNA binding surface [nucleotide binding]; other site 167879008285 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 167879008286 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 167879008287 Coenzyme A binding pocket [chemical binding]; other site 167879008288 prolyl-tRNA synthetase; Provisional; Region: PRK09194 167879008289 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 167879008290 dimer interface [polypeptide binding]; other site 167879008291 motif 1; other site 167879008292 active site 167879008293 motif 2; other site 167879008294 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 167879008295 putative deacylase active site [active] 167879008296 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 167879008297 active site 167879008298 motif 3; other site 167879008299 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 167879008300 anticodon binding site; other site 167879008301 aminotransferase AlaT; Validated; Region: PRK09265 167879008302 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 167879008303 pyridoxal 5'-phosphate binding site [chemical binding]; other site 167879008304 homodimer interface [polypeptide binding]; other site 167879008305 catalytic residue [active] 167879008306 5'-nucleotidase; Provisional; Region: PRK03826 167879008307 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 167879008308 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 167879008309 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 167879008310 PYR/PP interface [polypeptide binding]; other site 167879008311 dimer interface [polypeptide binding]; other site 167879008312 TPP binding site [chemical binding]; other site 167879008313 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 167879008314 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 167879008315 TPP-binding site [chemical binding]; other site 167879008316 dimer interface [polypeptide binding]; other site 167879008317 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 167879008318 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 167879008319 putative valine binding site [chemical binding]; other site 167879008320 dimer interface [polypeptide binding]; other site 167879008321 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 167879008322 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 167879008323 substrate binding pocket [chemical binding]; other site 167879008324 membrane-bound complex binding site; other site 167879008325 hinge residues; other site 167879008326 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]; Region: COG4623 167879008327 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 167879008328 substrate binding pocket [chemical binding]; other site 167879008329 membrane-bound complex binding site; other site 167879008330 hinge residues; other site 167879008331 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 167879008332 N-acetyl-D-glucosamine binding site [chemical binding]; other site 167879008333 catalytic residue [active] 167879008334 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 167879008335 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 167879008336 active site 167879008337 HIGH motif; other site 167879008338 nucleotide binding site [chemical binding]; other site 167879008339 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 167879008340 KMSKS motif; other site 167879008341 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 167879008342 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 167879008343 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 167879008344 active site 167879008345 phosphorylation site [posttranslational modification] 167879008346 intermolecular recognition site; other site 167879008347 dimerization interface [polypeptide binding]; other site 167879008348 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 167879008349 Zn2+ binding site [ion binding]; other site 167879008350 Mg2+ binding site [ion binding]; other site 167879008351 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 167879008352 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 167879008353 active site 167879008354 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 167879008355 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 167879008356 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 167879008357 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 167879008358 active site 167879008359 phosphorylation site [posttranslational modification] 167879008360 intermolecular recognition site; other site 167879008361 dimerization interface [polypeptide binding]; other site 167879008362 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 167879008363 Walker A motif; other site 167879008364 ATP binding site [chemical binding]; other site 167879008365 Walker B motif; other site 167879008366 arginine finger; other site 167879008367 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 167879008368 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 167879008369 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 167879008370 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 167879008371 Bacterial sugar transferase; Region: Bac_transf; pfam02397 167879008372 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 167879008373 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 167879008374 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 167879008375 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 167879008376 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 167879008377 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 167879008378 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 167879008379 active site 167879008380 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 167879008381 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 167879008382 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 167879008383 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; cd00130 167879008384 PAS fold; Region: PAS_3; pfam08447 167879008385 putative active site [active] 167879008386 heme pocket [chemical binding]; other site 167879008387 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 167879008388 GAF domain; Region: GAF; pfam01590 167879008389 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; cd00130 167879008390 PAS fold; Region: PAS_3; pfam08447 167879008391 putative active site [active] 167879008392 heme pocket [chemical binding]; other site 167879008393 PAS domain; Region: PAS_9; pfam13426 167879008394 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; cd00130 167879008395 putative active site [active] 167879008396 heme pocket [chemical binding]; other site 167879008397 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879008398 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879008399 metal binding site [ion binding]; metal-binding site 167879008400 active site 167879008401 I-site; other site 167879008402 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 167879008403 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 167879008404 dimer interface [polypeptide binding]; other site 167879008405 phosphorylation site [posttranslational modification] 167879008406 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 167879008407 ATP binding site [chemical binding]; other site 167879008408 Mg2+ binding site [ion binding]; other site 167879008409 G-X-G motif; other site 167879008410 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 167879008411 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_2; cd06335 167879008412 putative ligand binding site [chemical binding]; other site 167879008413 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 167879008414 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 167879008415 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 167879008416 GIY-YIG motif/motif A; other site 167879008417 active site 167879008418 catalytic site [active] 167879008419 putative DNA binding site [nucleotide binding]; other site 167879008420 metal binding site [ion binding]; metal-binding site 167879008421 UvrB/uvrC motif; Region: UVR; pfam02151 167879008422 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 167879008423 response regulator; Provisional; Region: PRK09483 167879008424 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 167879008425 active site 167879008426 phosphorylation site [posttranslational modification] 167879008427 intermolecular recognition site; other site 167879008428 dimerization interface [polypeptide binding]; other site 167879008429 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 167879008430 DNA binding residues [nucleotide binding] 167879008431 dimerization interface [polypeptide binding]; other site 167879008432 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 167879008433 active site 1 [active] 167879008434 dimer interface [polypeptide binding]; other site 167879008435 active site 2 [active] 167879008436 Ribosome modulation factor; Region: RMF; pfam04957 167879008437 Protein of unknown function (DUF3466); Region: DUF3466; pfam11949 167879008438 ABC transporter ATPase component; Reviewed; Region: PRK11147 167879008439 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 167879008440 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 167879008441 ABC transporter; Region: ABC_tran_2; pfam12848 167879008442 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 167879008443 Glutaredoxin-like domain (DUF836); Region: DUF836; cl17650 167879008444 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 167879008445 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 167879008446 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 167879008447 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 167879008448 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 167879008449 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 167879008450 non-specific DNA binding site [nucleotide binding]; other site 167879008451 salt bridge; other site 167879008452 sequence-specific DNA binding site [nucleotide binding]; other site 167879008453 Cupin domain; Region: Cupin_2; pfam07883 167879008454 Protein of unknown function (DUF808); Region: DUF808; pfam05661 167879008455 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 167879008456 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 167879008457 NAD(P) binding site [chemical binding]; other site 167879008458 HopJ type III effector protein; Region: HopJ; pfam08888 167879008459 Protein of unknown function (DUF2999); Region: DUF2999; pfam11212 167879008460 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 167879008461 universal stress protein UspE; Provisional; Region: PRK11175 167879008462 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 167879008463 Ligand Binding Site [chemical binding]; other site 167879008464 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 167879008465 Ligand Binding Site [chemical binding]; other site 167879008466 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 167879008467 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 167879008468 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 167879008469 Walker A motif; other site 167879008470 ATP binding site [chemical binding]; other site 167879008471 Walker B motif; other site 167879008472 arginine finger; other site 167879008473 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 167879008474 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 167879008475 dimer interface [polypeptide binding]; other site 167879008476 putative CheW interface [polypeptide binding]; other site 167879008477 GMP synthetase; Region: PLN02347 167879008478 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 167879008479 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 167879008480 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 167879008481 dimerization interface [polypeptide binding]; other site 167879008482 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 167879008483 ATP binding site [chemical binding]; other site 167879008484 Mg2+ binding site [ion binding]; other site 167879008485 G-X-G motif; other site 167879008486 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 167879008487 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 167879008488 active site 167879008489 phosphorylation site [posttranslational modification] 167879008490 intermolecular recognition site; other site 167879008491 dimerization interface [polypeptide binding]; other site 167879008492 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 167879008493 DNA binding site [nucleotide binding] 167879008494 Methyltransferase domain; Region: Methyltransf_23; pfam13489 167879008495 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 167879008496 S-adenosylmethionine binding site [chemical binding]; other site 167879008497 Protein of unknown function (DUF3233); Region: DUF3233; pfam11557 167879008498 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 167879008499 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 167879008500 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 167879008501 Walker A/P-loop; other site 167879008502 ATP binding site [chemical binding]; other site 167879008503 Q-loop/lid; other site 167879008504 ABC transporter signature motif; other site 167879008505 Walker B; other site 167879008506 D-loop; other site 167879008507 H-loop/switch region; other site 167879008508 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 167879008509 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 167879008510 putative S-transferase; Provisional; Region: PRK11752 167879008511 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 167879008512 C-terminal domain interface [polypeptide binding]; other site 167879008513 GSH binding site (G-site) [chemical binding]; other site 167879008514 dimer interface [polypeptide binding]; other site 167879008515 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 167879008516 dimer interface [polypeptide binding]; other site 167879008517 N-terminal domain interface [polypeptide binding]; other site 167879008518 active site 167879008519 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 167879008520 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 167879008521 Walker A/P-loop; other site 167879008522 ATP binding site [chemical binding]; other site 167879008523 Q-loop/lid; other site 167879008524 ABC transporter signature motif; other site 167879008525 Walker B; other site 167879008526 D-loop; other site 167879008527 H-loop/switch region; other site 167879008528 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 167879008529 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 167879008530 dimer interface [polypeptide binding]; other site 167879008531 conserved gate region; other site 167879008532 putative PBP binding loops; other site 167879008533 ABC-ATPase subunit interface; other site 167879008534 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 167879008535 NMT1-like family; Region: NMT1_2; pfam13379 167879008536 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 167879008537 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 167879008538 active site 167879008539 phosphorylation site [posttranslational modification] 167879008540 intermolecular recognition site; other site 167879008541 dimerization interface [polypeptide binding]; other site 167879008542 ANTAR domain; Region: ANTAR; pfam03861 167879008543 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 167879008544 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 167879008545 substrate binding site [chemical binding]; other site 167879008546 oxyanion hole (OAH) forming residues; other site 167879008547 trimer interface [polypeptide binding]; other site 167879008548 Transcriptional regulator [Transcription]; Region: LysR; COG0583 167879008549 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879008550 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 167879008551 putative effector binding pocket; other site 167879008552 dimerization interface [polypeptide binding]; other site 167879008553 Transposase; Region: DEDD_Tnp_IS110; pfam01548 167879008554 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 167879008555 Predicted ATPase [General function prediction only]; Region: COG3911 167879008556 AAA domain; Region: AAA_28; pfam13521 167879008557 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 167879008558 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 167879008559 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 167879008560 putative heme binding pocket [chemical binding]; other site 167879008561 Predicted membrane protein [Function unknown]; Region: COG2259 167879008562 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 167879008563 Transcriptional regulators [Transcription]; Region: MarR; COG1846 167879008564 MarR family; Region: MarR; pfam01047 167879008565 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 167879008566 Peptidase S8 family domain, uncharacterized subfamily 3; Region: Peptidases_S8_3; cd04852 167879008567 active site 167879008568 catalytic triad [active] 167879008569 PA_subtilisin_like: Protease-associated domain containing subtilisin-like proteases. This group contains various PA domain-containing subtilisin-like proteases including melon cucumisin, Arabidopsis thaliana Ara12, a nodule specific serine protease from...; Region: PA_subtilisin_like; cd02120 167879008570 PA/protease or protease-like domain interface [polypeptide binding]; other site 167879008571 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 167879008572 catalytic residues [active] 167879008573 Predicted integral membrane protein [Function unknown]; Region: COG5616 167879008574 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 167879008575 TPR motif; other site 167879008576 binding surface 167879008577 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 167879008578 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 167879008579 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 167879008580 TrkA-N domain; Region: TrkA_N; pfam02254 167879008581 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 167879008582 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 167879008583 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 167879008584 putative hydrolase, CocE/NonD family; Region: /NonD; TIGR00976 167879008585 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 167879008586 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 167879008587 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 167879008588 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 167879008589 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 167879008590 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 167879008591 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 167879008592 acyl-activating enzyme (AAE) consensus motif; other site 167879008593 AMP binding site [chemical binding]; other site 167879008594 active site 167879008595 CoA binding site [chemical binding]; other site 167879008596 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 167879008597 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 167879008598 substrate binding site [chemical binding]; other site 167879008599 oxyanion hole (OAH) forming residues; other site 167879008600 trimer interface [polypeptide binding]; other site 167879008601 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 167879008602 Na binding site [ion binding]; other site 167879008603 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 167879008604 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 167879008605 EamA-like transporter family; Region: EamA; pfam00892 167879008606 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 167879008607 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 167879008608 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 167879008609 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 167879008610 DNA binding site [nucleotide binding] 167879008611 active site 167879008612 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 167879008613 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 167879008614 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 167879008615 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 167879008616 Predicted permeases [General function prediction only]; Region: COG0701 167879008617 Low molecular weight phosphatase family; Region: LMWPc; cd00115 167879008618 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 167879008619 active site 167879008620 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 167879008621 dimerization interface [polypeptide binding]; other site 167879008622 putative DNA binding site [nucleotide binding]; other site 167879008623 putative Zn2+ binding site [ion binding]; other site 167879008624 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 167879008625 Uncharacterized ALDH ( RL0313) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_RL0313; cd07148 167879008626 NAD(P) binding site [chemical binding]; other site 167879008627 catalytic residues [active] 167879008628 acetolactate synthase; Reviewed; Region: PRK08322 167879008629 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 167879008630 PYR/PP interface [polypeptide binding]; other site 167879008631 dimer interface [polypeptide binding]; other site 167879008632 TPP binding site [chemical binding]; other site 167879008633 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 167879008634 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 167879008635 TPP-binding site [chemical binding]; other site 167879008636 dimer interface [polypeptide binding]; other site 167879008637 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 167879008638 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 167879008639 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 167879008640 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 167879008641 SelR domain; Region: SelR; pfam01641 167879008642 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 167879008643 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 167879008644 Alpha amylase catalytic domain found in bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac1_AmyA; cd11315 167879008645 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 167879008646 active site 167879008647 Ca binding site [ion binding]; other site 167879008648 catalytic site [active] 167879008649 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 167879008650 dimer interaction site [polypeptide binding]; other site 167879008651 substrate-binding tunnel; other site 167879008652 active site 167879008653 catalytic site [active] 167879008654 substrate binding site [chemical binding]; other site 167879008655 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 167879008656 transmembrane helices; other site 167879008657 TrkA-C domain; Region: TrkA_C; pfam02080 167879008658 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 167879008659 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 167879008660 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 167879008661 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 167879008662 putative active site [active] 167879008663 Zn binding site [ion binding]; other site 167879008664 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_b1; cd09203 167879008665 PLD-like domain; Region: PLDc_2; pfam13091 167879008666 putative homodimer interface [polypeptide binding]; other site 167879008667 putative active site [active] 167879008668 catalytic site [active] 167879008669 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 167879008670 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 167879008671 ATP binding site [chemical binding]; other site 167879008672 putative Mg++ binding site [ion binding]; other site 167879008673 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 167879008674 nucleotide binding region [chemical binding]; other site 167879008675 ATP-binding site [chemical binding]; other site 167879008676 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 167879008677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 167879008678 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 167879008679 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 167879008680 Uncharacterized conserved protein [Function unknown]; Region: COG5361 167879008681 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 167879008682 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 167879008683 Uncharacterized conserved protein [Function unknown]; Region: COG5361 167879008684 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 167879008685 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 167879008686 marine proteobacterial sortase target protein; Region: marine_srt_targ; TIGR03788 167879008687 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 167879008688 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 167879008689 metal ion-dependent adhesion site (MIDAS); other site 167879008690 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved...; Region: Sortase_D_4; cd05828 167879008691 active site 167879008692 catalytic site [active] 167879008693 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 167879008694 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 167879008695 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 167879008696 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; pfam04828 167879008697 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 167879008698 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 167879008699 pyridoxal 5'-phosphate binding site [chemical binding]; other site 167879008700 homodimer interface [polypeptide binding]; other site 167879008701 catalytic residue [active] 167879008702 EamA-like transporter family; Region: EamA; pfam00892 167879008703 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 167879008704 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 167879008705 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 167879008706 DNA-binding site [nucleotide binding]; DNA binding site 167879008707 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 167879008708 pyridoxal 5'-phosphate binding site [chemical binding]; other site 167879008709 homodimer interface [polypeptide binding]; other site 167879008710 catalytic residue [active] 167879008711 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 167879008712 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 167879008713 Predicted membrane protein [Function unknown]; Region: COG2259 167879008714 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 167879008715 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 167879008716 catalytic residues [active] 167879008717 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 167879008718 Cupin; Region: Cupin_6; pfam12852 167879008719 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 167879008720 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 167879008721 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 167879008722 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 167879008723 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 167879008724 Predicted transcriptional regulator [Transcription]; Region: COG2378 167879008725 HTH domain; Region: HTH_11; pfam08279 167879008726 WYL domain; Region: WYL; pfam13280 167879008727 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 167879008728 DEAD-like helicases superfamily; Region: DEXDc; smart00487 167879008729 ATP binding site [chemical binding]; other site 167879008730 Mg++ binding site [ion binding]; other site 167879008731 motif III; other site 167879008732 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 167879008733 nucleotide binding region [chemical binding]; other site 167879008734 ATP-binding site [chemical binding]; other site 167879008735 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 167879008736 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 167879008737 ATP binding site [chemical binding]; other site 167879008738 putative Mg++ binding site [ion binding]; other site 167879008739 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 167879008740 nucleotide binding region [chemical binding]; other site 167879008741 ATP-binding site [chemical binding]; other site 167879008742 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 167879008743 hypothetical protein; Provisional; Region: PRK05409 167879008744 Predicted integral membrane protein (DUF2282); Region: DUF2282; pfam10048 167879008745 Predicted integral membrane protein (DUF2282); Region: DUF2282; pfam10048 167879008746 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 167879008747 Isochorismatase family; Region: Isochorismatase; pfam00857 167879008748 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 167879008749 catalytic triad [active] 167879008750 dimer interface [polypeptide binding]; other site 167879008751 conserved cis-peptide bond; other site 167879008752 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 167879008753 CoenzymeA binding site [chemical binding]; other site 167879008754 subunit interaction site [polypeptide binding]; other site 167879008755 PHB binding site; other site 167879008756 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 167879008757 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 167879008758 acyl-activating enzyme (AAE) consensus motif; other site 167879008759 AMP binding site [chemical binding]; other site 167879008760 active site 167879008761 CoA binding site [chemical binding]; other site 167879008762 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 167879008763 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 167879008764 Walker A/P-loop; other site 167879008765 ATP binding site [chemical binding]; other site 167879008766 Q-loop/lid; other site 167879008767 ABC transporter signature motif; other site 167879008768 Walker B; other site 167879008769 D-loop; other site 167879008770 H-loop/switch region; other site 167879008771 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 167879008772 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_1; cd06334 167879008773 putative ligand binding site [chemical binding]; other site 167879008774 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 167879008775 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 167879008776 TM-ABC transporter signature motif; other site 167879008777 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 167879008778 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 167879008779 TM-ABC transporter signature motif; other site 167879008780 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 167879008781 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 167879008782 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 167879008783 acyl-activating enzyme (AAE) consensus motif; other site 167879008784 putative AMP binding site [chemical binding]; other site 167879008785 putative active site [active] 167879008786 putative CoA binding site [chemical binding]; other site 167879008787 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 167879008788 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 167879008789 Walker A/P-loop; other site 167879008790 ATP binding site [chemical binding]; other site 167879008791 Q-loop/lid; other site 167879008792 ABC transporter signature motif; other site 167879008793 Walker B; other site 167879008794 D-loop; other site 167879008795 H-loop/switch region; other site 167879008796 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 167879008797 Na binding site [ion binding]; other site 167879008798 PAS fold; Region: PAS_7; pfam12860 167879008799 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 167879008800 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 167879008801 phosphorylation site [posttranslational modification] 167879008802 dimer interface [polypeptide binding]; other site 167879008803 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 167879008804 ATP binding site [chemical binding]; other site 167879008805 Mg2+ binding site [ion binding]; other site 167879008806 G-X-G motif; other site 167879008807 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 167879008808 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 167879008809 active site 167879008810 phosphorylation site [posttranslational modification] 167879008811 intermolecular recognition site; other site 167879008812 dimerization interface [polypeptide binding]; other site 167879008813 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 167879008814 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 167879008815 active site 167879008816 phosphorylation site [posttranslational modification] 167879008817 intermolecular recognition site; other site 167879008818 dimerization interface [polypeptide binding]; other site 167879008819 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 167879008820 DNA binding residues [nucleotide binding] 167879008821 dimerization interface [polypeptide binding]; other site 167879008822 Transcriptional regulator [Transcription]; Region: LysR; COG0583 167879008823 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879008824 LysR substrate binding domain; Region: LysR_substrate; pfam03466 167879008825 dimerization interface [polypeptide binding]; other site 167879008826 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 167879008827 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 167879008828 tetrameric interface [polypeptide binding]; other site 167879008829 NAD binding site [chemical binding]; other site 167879008830 catalytic residues [active] 167879008831 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 167879008832 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 167879008833 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 167879008834 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 167879008835 N-terminal plug; other site 167879008836 ligand-binding site [chemical binding]; other site 167879008837 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 167879008838 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 167879008839 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 167879008840 acyl-activating enzyme (AAE) consensus motif; other site 167879008841 putative AMP binding site [chemical binding]; other site 167879008842 putative active site [active] 167879008843 putative CoA binding site [chemical binding]; other site 167879008844 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 167879008845 NAD(P) binding site [chemical binding]; other site 167879008846 catalytic residues [active] 167879008847 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 167879008848 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 167879008849 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 167879008850 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 167879008851 SurA N-terminal domain; Region: SurA_N; pfam09312 167879008852 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 167879008853 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 167879008854 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 167879008855 choline dehydrogenase; Validated; Region: PRK02106 167879008856 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 167879008857 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 167879008858 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 167879008859 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_like_2; cd09320 167879008860 gating phenylalanine in ion channel; other site 167879008861 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 167879008862 Cytochrome c; Region: Cytochrom_C; cl11414 167879008863 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 167879008864 arsenical-resistance protein; Region: acr3; TIGR00832 167879008865 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 167879008866 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 167879008867 DNA binding residues [nucleotide binding] 167879008868 dimerization interface [polypeptide binding]; other site 167879008869 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 167879008870 Preprotein translocase SecG subunit; Region: SecG; pfam03840 167879008871 triosephosphate isomerase; Provisional; Region: PRK14567 167879008872 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 167879008873 substrate binding site [chemical binding]; other site 167879008874 dimer interface [polypeptide binding]; other site 167879008875 catalytic triad [active] 167879008876 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 167879008877 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 167879008878 active site 167879008879 substrate binding site [chemical binding]; other site 167879008880 metal binding site [ion binding]; metal-binding site 167879008881 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 167879008882 dihydropteroate synthase; Region: DHPS; TIGR01496 167879008883 substrate binding pocket [chemical binding]; other site 167879008884 dimer interface [polypeptide binding]; other site 167879008885 inhibitor binding site; inhibition site 167879008886 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 167879008887 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 167879008888 Walker A motif; other site 167879008889 ATP binding site [chemical binding]; other site 167879008890 Walker B motif; other site 167879008891 arginine finger; other site 167879008892 Peptidase family M41; Region: Peptidase_M41; pfam01434 167879008893 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 167879008894 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 167879008895 S-adenosylmethionine binding site [chemical binding]; other site 167879008896 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 167879008897 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 167879008898 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_2; cd03402 167879008899 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 167879008900 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 167879008901 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 167879008902 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 167879008903 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 167879008904 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 167879008905 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 167879008906 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 167879008907 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 167879008908 ATP-grasp domain; Region: ATP-grasp_4; cl17255 167879008909 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 167879008910 IMP binding site; other site 167879008911 dimer interface [polypeptide binding]; other site 167879008912 interdomain contacts; other site 167879008913 partial ornithine binding site; other site 167879008914 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 167879008915 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 167879008916 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 167879008917 catalytic site [active] 167879008918 subunit interface [polypeptide binding]; other site 167879008919 dihydrodipicolinate reductase; Provisional; Region: PRK00048 167879008920 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 167879008921 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 167879008922 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 167879008923 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 167879008924 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 167879008925 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 167879008926 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 167879008927 Na binding site [ion binding]; other site 167879008928 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 167879008929 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 167879008930 H+/citrate symporter [Energy production and conversion]; Region: CitM; cl17620 167879008931 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 167879008932 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 167879008933 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 167879008934 nucleotide binding pocket [chemical binding]; other site 167879008935 K-X-D-G motif; other site 167879008936 catalytic site [active] 167879008937 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 167879008938 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 167879008939 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 167879008940 Dimer interface [polypeptide binding]; other site 167879008941 BRCT sequence motif; other site 167879008942 Cell division protein [Cell division and chromosome partitioning]; Region: ZipA; COG3115 167879008943 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 167879008944 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 167879008945 FtsZ protein binding site [polypeptide binding]; other site 167879008946 putative sulfate transport protein CysZ; Validated; Region: PRK04949 167879008947 leukotriene A-4 hydrolase/aminopeptidase; Region: leuko_A4_hydro; TIGR02411 167879008948 Peptidase M1 family contains leukotriene A4 hydrolase; Region: M1_LTA4H; cd09599 167879008949 active site 167879008950 Zn binding site [ion binding]; other site 167879008951 Leukotriene A4 hydrolase, C-terminal; Region: Leuk-A4-hydro_C; pfam09127 167879008952 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 167879008953 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 167879008954 ligand binding site [chemical binding]; other site 167879008955 ribonuclease T; Provisional; Region: PRK05168 167879008956 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 167879008957 active site 167879008958 catalytic site [active] 167879008959 substrate binding site [chemical binding]; other site 167879008960 peroxidase; Provisional; Region: PRK15000 167879008961 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 167879008962 dimer interface [polypeptide binding]; other site 167879008963 decamer (pentamer of dimers) interface [polypeptide binding]; other site 167879008964 catalytic triad [active] 167879008965 peroxidatic and resolving cysteines [active] 167879008966 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 167879008967 putative GSH binding site [chemical binding]; other site 167879008968 catalytic residues [active] 167879008969 superoxide dismutase; Provisional; Region: PRK10543 167879008970 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 167879008971 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 167879008972 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 167879008973 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 167879008974 FtsX-like permease family; Region: FtsX; pfam02687 167879008975 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 167879008976 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 167879008977 Walker A/P-loop; other site 167879008978 ATP binding site [chemical binding]; other site 167879008979 Q-loop/lid; other site 167879008980 ABC transporter signature motif; other site 167879008981 Walker B; other site 167879008982 D-loop; other site 167879008983 H-loop/switch region; other site 167879008984 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 167879008985 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 167879008986 FtsX-like permease family; Region: FtsX; pfam02687 167879008987 PilZ domain; Region: PilZ; pfam07238 167879008988 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 167879008989 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_cladeA; cd00883 167879008990 active site clefts [active] 167879008991 zinc binding site [ion binding]; other site 167879008992 dimer interface [polypeptide binding]; other site 167879008993 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 167879008994 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 167879008995 dimer interface [polypeptide binding]; other site 167879008996 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 167879008997 active site 167879008998 Fe binding site [ion binding]; other site 167879008999 PrkA family serine protein kinase; Provisional; Region: PRK15455 167879009000 AAA ATPase domain; Region: AAA_16; pfam13191 167879009001 Walker A motif; other site 167879009002 ATP binding site [chemical binding]; other site 167879009003 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 167879009004 hypothetical protein; Provisional; Region: PRK05325 167879009005 SpoVR family protein; Provisional; Region: PRK11767 167879009006 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 167879009007 fatty acid metabolism regulator; Provisional; Region: PRK04984 167879009008 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 167879009009 DNA-binding site [nucleotide binding]; DNA binding site 167879009010 FadR C-terminal domain; Region: FadR_C; pfam07840 167879009011 Protein of unknown function (DUF1569); Region: DUF1569; pfam07606 167879009012 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 167879009013 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 167879009014 active site 167879009015 metal binding site [ion binding]; metal-binding site 167879009016 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 167879009017 putative dimer interface [polypeptide binding]; other site 167879009018 N-terminal domain interface [polypeptide binding]; other site 167879009019 putative substrate binding pocket (H-site) [chemical binding]; other site 167879009020 Transcriptional regulator [Transcription]; Region: LysR; COG0583 167879009021 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879009022 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 167879009023 putative effector binding pocket; other site 167879009024 dimerization interface [polypeptide binding]; other site 167879009025 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; cl10015 167879009026 homotrimer interaction site [polypeptide binding]; other site 167879009027 putative active site [active] 167879009028 SnoaL-like domain; Region: SnoaL_2; pfam12680 167879009029 Putative cyclase; Region: Cyclase; pfam04199 167879009030 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 167879009031 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 167879009032 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 167879009033 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 167879009034 FtsX-like permease family; Region: FtsX; pfam02687 167879009035 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 167879009036 FtsX-like permease family; Region: FtsX; pfam02687 167879009037 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 167879009038 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 167879009039 Walker A/P-loop; other site 167879009040 ATP binding site [chemical binding]; other site 167879009041 Q-loop/lid; other site 167879009042 ABC transporter signature motif; other site 167879009043 Walker B; other site 167879009044 D-loop; other site 167879009045 H-loop/switch region; other site 167879009046 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 167879009047 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 167879009048 HlyD family secretion protein; Region: HlyD_3; pfam13437 167879009049 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 167879009050 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 167879009051 DNA binding site [nucleotide binding] 167879009052 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 167879009053 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 167879009054 potential catalytic triad [active] 167879009055 conserved cys residue [active] 167879009056 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 167879009057 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 167879009058 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 167879009059 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 167879009060 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 167879009061 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 167879009062 hypothetical protein; Provisional; Region: PRK05170 167879009063 Transglycosylase SLT domain; Region: SLT_2; pfam13406 167879009064 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 167879009065 N-acetyl-D-glucosamine binding site [chemical binding]; other site 167879009066 YcgL domain; Region: YcgL; pfam05166 167879009067 ribonuclease D; Provisional; Region: PRK10829 167879009068 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 167879009069 catalytic site [active] 167879009070 putative active site [active] 167879009071 putative substrate binding site [chemical binding]; other site 167879009072 HRDC domain; Region: HRDC; pfam00570 167879009073 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 167879009074 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 167879009075 RNA binding surface [nucleotide binding]; other site 167879009076 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 167879009077 probable active site [active] 167879009078 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 167879009079 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 167879009080 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 167879009081 active site 167879009082 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 167879009083 anthranilate synthase component I; Provisional; Region: PRK13564 167879009084 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 167879009085 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 167879009086 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 167879009087 Glutamine amidotransferase class-I; Region: GATase; pfam00117 167879009088 glutamine binding [chemical binding]; other site 167879009089 catalytic triad [active] 167879009090 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 167879009091 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 167879009092 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 167879009093 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 167879009094 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 167879009095 active site 167879009096 ribulose/triose binding site [chemical binding]; other site 167879009097 phosphate binding site [ion binding]; other site 167879009098 substrate (anthranilate) binding pocket [chemical binding]; other site 167879009099 product (indole) binding pocket [chemical binding]; other site 167879009100 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 167879009101 active site 167879009102 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 167879009103 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 167879009104 pyridoxal 5'-phosphate binding site [chemical binding]; other site 167879009105 catalytic residue [active] 167879009106 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 167879009107 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 167879009108 substrate binding site [chemical binding]; other site 167879009109 active site 167879009110 catalytic residues [active] 167879009111 heterodimer interface [polypeptide binding]; other site 167879009112 Protein of unknown function (DUF3192); Region: DUF3192; pfam11399 167879009113 SecY interacting protein Syd; Provisional; Region: PRK04968 167879009114 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 167879009115 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 167879009116 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 167879009117 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 167879009118 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 167879009119 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 167879009120 protein binding site [polypeptide binding]; other site 167879009121 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879009122 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879009123 metal binding site [ion binding]; metal-binding site 167879009124 active site 167879009125 I-site; other site 167879009126 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 167879009127 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 167879009128 flap endonuclease-like protein; Provisional; Region: PRK09482 167879009129 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 167879009130 active site 167879009131 metal binding site 1 [ion binding]; metal-binding site 167879009132 putative 5' ssDNA interaction site; other site 167879009133 metal binding site 3; metal-binding site 167879009134 metal binding site 2 [ion binding]; metal-binding site 167879009135 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 167879009136 putative DNA binding site [nucleotide binding]; other site 167879009137 putative metal binding site [ion binding]; other site 167879009138 Protein of unknown function (DUF3192); Region: DUF3192; pfam11399 167879009139 tartrate dehydrogenase; Provisional; Region: PRK08194 167879009140 isocitrate dehydrogenase; Provisional; Region: PRK08997 167879009141 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 167879009142 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 167879009143 Protein of unknown function (DUF423); Region: DUF423; pfam04241 167879009144 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 167879009145 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 167879009146 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879009147 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 167879009148 dimerization interface [polypeptide binding]; other site 167879009149 substrate binding pocket [chemical binding]; other site 167879009150 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 167879009151 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 167879009152 Protein of unknown function (DUF819); Region: DUF819; cl02317 167879009153 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 167879009154 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 167879009155 binding surface 167879009156 Tetratricopeptide repeat; Region: TPR_9; pfam13371 167879009157 TPR motif; other site 167879009158 Invasion gene expression up-regulator, SirB; Region: SirB; pfam04247 167879009159 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 167879009160 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 167879009161 peptide chain release factor 1; Validated; Region: prfA; PRK00591 167879009162 This domain is found in peptide chain release factors; Region: PCRF; smart00937 167879009163 RF-1 domain; Region: RF-1; pfam00472 167879009164 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 167879009165 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 167879009166 tRNA; other site 167879009167 putative tRNA binding site [nucleotide binding]; other site 167879009168 putative NADP binding site [chemical binding]; other site 167879009169 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 167879009170 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 167879009171 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 167879009172 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 167879009173 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 167879009174 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 167879009175 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 167879009176 active site 167879009177 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 167879009178 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 167879009179 5S rRNA interface [nucleotide binding]; other site 167879009180 CTC domain interface [polypeptide binding]; other site 167879009181 L16 interface [polypeptide binding]; other site 167879009182 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 167879009183 putative active site [active] 167879009184 catalytic residue [active] 167879009185 GTP-binding protein YchF; Reviewed; Region: PRK09601 167879009186 YchF GTPase; Region: YchF; cd01900 167879009187 G1 box; other site 167879009188 GTP/Mg2+ binding site [chemical binding]; other site 167879009189 Switch I region; other site 167879009190 G2 box; other site 167879009191 Switch II region; other site 167879009192 G3 box; other site 167879009193 G4 box; other site 167879009194 G5 box; other site 167879009195 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 167879009196 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 167879009197 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 167879009198 Nitrate and nitrite sensing; Region: NIT; pfam08376 167879009199 Nitrate and nitrite sensing; Region: NIT; pfam08376 167879009200 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 167879009201 dimerization interface [polypeptide binding]; other site 167879009202 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; cd00130 167879009203 PAS domain; Region: PAS_9; pfam13426 167879009204 putative active site [active] 167879009205 heme pocket [chemical binding]; other site 167879009206 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879009207 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879009208 metal binding site [ion binding]; metal-binding site 167879009209 active site 167879009210 I-site; other site 167879009211 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 167879009212 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 167879009213 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 167879009214 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 167879009215 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 167879009216 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 167879009217 FeS/SAM binding site; other site 167879009218 TRAM domain; Region: TRAM; pfam01938 167879009219 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 167879009220 PhoH-like protein; Region: PhoH; pfam02562 167879009221 metal-binding heat shock protein; Provisional; Region: PRK00016 167879009222 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 167879009223 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 167879009224 Transporter associated domain; Region: CorC_HlyC; smart01091 167879009225 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 167879009226 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 167879009227 putative active site [active] 167879009228 catalytic triad [active] 167879009229 putative dimer interface [polypeptide binding]; other site 167879009230 PAS domain; Region: PAS; smart00091 167879009231 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879009232 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879009233 metal binding site [ion binding]; metal-binding site 167879009234 active site 167879009235 I-site; other site 167879009236 Response regulator receiver domain; Region: Response_reg; pfam00072 167879009237 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 167879009238 active site 167879009239 phosphorylation site [posttranslational modification] 167879009240 intermolecular recognition site; other site 167879009241 dimerization interface [polypeptide binding]; other site 167879009242 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 167879009243 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 167879009244 dimer interface [polypeptide binding]; other site 167879009245 catalytic triad [active] 167879009246 peroxidatic and resolving cysteines [active] 167879009247 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 167879009248 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 167879009249 putative dimer interface [polypeptide binding]; other site 167879009250 hypothetical protein; Provisional; Region: PRK07236 167879009251 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 167879009252 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 167879009253 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 167879009254 DNA binding site [nucleotide binding] 167879009255 active site 167879009256 hypothetical protein; Validated; Region: PRK00124 167879009257 Ion transport protein; Region: Ion_trans; pfam00520 167879009258 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 167879009259 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 167879009260 Na2 binding site [ion binding]; other site 167879009261 putative substrate binding site 1 [chemical binding]; other site 167879009262 Na binding site 1 [ion binding]; other site 167879009263 putative substrate binding site 2 [chemical binding]; other site 167879009264 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 167879009265 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 167879009266 substrate binding pocket [chemical binding]; other site 167879009267 membrane-bound complex binding site; other site 167879009268 hinge residues; other site 167879009269 RmuC family; Region: RmuC; pfam02646 167879009270 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 167879009271 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 167879009272 Bacterial transcriptional regulator; Region: IclR; pfam01614 167879009273 Coenzyme A transferase; Region: CoA_trans; cl17247 167879009274 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 167879009275 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 167879009276 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 167879009277 inhibitor-cofactor binding pocket; inhibition site 167879009278 pyridoxal 5'-phosphate binding site [chemical binding]; other site 167879009279 catalytic residue [active] 167879009280 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 167879009281 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 167879009282 dimer interface [polypeptide binding]; other site 167879009283 active site 167879009284 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 167879009285 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 167879009286 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 167879009287 putative NADH binding site [chemical binding]; other site 167879009288 putative active site [active] 167879009289 nudix motif; other site 167879009290 putative metal binding site [ion binding]; other site 167879009291 Predicted transcriptional regulators [Transcription]; Region: COG1733 167879009292 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 167879009293 Response regulator receiver domain; Region: Response_reg; pfam00072 167879009294 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 167879009295 active site 167879009296 phosphorylation site [posttranslational modification] 167879009297 intermolecular recognition site; other site 167879009298 dimerization interface [polypeptide binding]; other site 167879009299 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879009300 metal binding site [ion binding]; metal-binding site 167879009301 active site 167879009302 I-site; other site 167879009303 hypothetical protein; Provisional; Region: PRK03757 167879009304 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 167879009305 Transcriptional regulator [Transcription]; Region: LysR; COG0583 167879009306 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879009307 LysR substrate binding domain; Region: LysR_substrate; pfam03466 167879009308 dimerization interface [polypeptide binding]; other site 167879009309 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 167879009310 Major Facilitator Superfamily; Region: MFS_1; pfam07690 167879009311 putative substrate translocation pore; other site 167879009312 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 167879009313 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 167879009314 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 167879009315 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 167879009316 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879009317 The C-terminal substrate binding domain of LysR-type transcriptional regulators GcdR-like, contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_like; cd08481 167879009318 dimerization interface [polypeptide binding]; other site 167879009319 substrate binding pocket [chemical binding]; other site 167879009320 Protein of unknown function (DUF805); Region: DUF805; pfam05656 167879009321 Flagellin N-methylase; Region: FliB; cl00497 167879009322 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 167879009323 dimer interface [polypeptide binding]; other site 167879009324 phosphorylation site [posttranslational modification] 167879009325 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 167879009326 ATP binding site [chemical binding]; other site 167879009327 Mg2+ binding site [ion binding]; other site 167879009328 G-X-G motif; other site 167879009329 Heme NO binding; Region: HNOB; pfam07700 167879009330 Transcriptional regulator [Transcription]; Region: LysR; COG0583 167879009331 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879009332 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 167879009333 putative effector binding pocket; other site 167879009334 dimerization interface [polypeptide binding]; other site 167879009335 Pirin-related protein [General function prediction only]; Region: COG1741 167879009336 Pirin; Region: Pirin; pfam02678 167879009337 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 167879009338 Fumarase C-terminus; Region: Fumerase_C; pfam05683 167879009339 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 167879009340 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 167879009341 chorismate binding enzyme; Region: Chorismate_bind; cl10555 167879009342 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 167879009343 putative active site [active] 167879009344 putative CoA binding site [chemical binding]; other site 167879009345 nudix motif; other site 167879009346 metal binding site [ion binding]; metal-binding site 167879009347 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 167879009348 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 167879009349 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 167879009350 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 167879009351 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 167879009352 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 167879009353 putative hydrophobic ligand binding site [chemical binding]; other site 167879009354 protein interface [polypeptide binding]; other site 167879009355 gate; other site 167879009356 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 167879009357 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 167879009358 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 167879009359 putative active site [active] 167879009360 putative substrate binding site [chemical binding]; other site 167879009361 putative cosubstrate binding site; other site 167879009362 catalytic site [active] 167879009363 thymidylate synthase; Reviewed; Region: thyA; PRK01827 167879009364 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 167879009365 dimerization interface [polypeptide binding]; other site 167879009366 active site 167879009367 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 167879009368 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 167879009369 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 167879009370 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 167879009371 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 167879009372 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 167879009373 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 167879009374 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 167879009375 putative active site [active] 167879009376 Ap4A binding site [chemical binding]; other site 167879009377 nudix motif; other site 167879009378 putative metal binding site [ion binding]; other site 167879009379 MutH is a 28kD endonuclease involved in methyl-directed DNA mismatch repair in gram negative bacteria. MutH is both sequence-specific and methylation-specific, introducing a nick in the unmethylated strand of a hemi-methylated d(GATC) DNA duplex. MutH...; Region: MutH_Sau3AI; cd00583 167879009380 putative DNA-binding cleft [nucleotide binding]; other site 167879009381 putative DNA clevage site; other site 167879009382 molecular lever; other site 167879009383 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 167879009384 active site 167879009385 phosphate binding residues; other site 167879009386 catalytic residues [active] 167879009387 hypothetical protein; Provisional; Region: PRK10279 167879009388 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 167879009389 active site 167879009390 nucleophile elbow; other site 167879009391 Surface antigen; Region: Bac_surface_Ag; pfam01103 167879009392 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 167879009393 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 167879009394 active site 167879009395 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 167879009396 Metallo-dependent hydrolases, subgroup C is part of the superfamily of metallo-dependent hydrolases, 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...; Region: Met_dep_hydrolase_C; cd01309 167879009397 active site 167879009398 Hemerythrin; Region: Hemerythrin; cd12107 167879009399 Fe binding site [ion binding]; other site 167879009400 Nitrate and nitrite sensing; Region: NIT; pfam08376 167879009401 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 167879009402 dimerization interface [polypeptide binding]; other site 167879009403 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879009404 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879009405 metal binding site [ion binding]; metal-binding site 167879009406 active site 167879009407 I-site; other site 167879009408 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 167879009409 TMAO/DMSO reductase; Reviewed; Region: PRK05363 167879009410 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 167879009411 Moco binding site; other site 167879009412 metal coordination site [ion binding]; other site 167879009413 Glutaredoxin; Region: Glutaredoxin; pfam00462 167879009414 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 167879009415 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 167879009416 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 167879009417 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 167879009418 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 167879009419 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 167879009420 transcriptional regulator PhoU; Provisional; Region: PRK11115 167879009421 PhoU domain; Region: PhoU; pfam01895 167879009422 PhoU domain; Region: PhoU; pfam01895 167879009423 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 167879009424 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 167879009425 Walker A/P-loop; other site 167879009426 ATP binding site [chemical binding]; other site 167879009427 Q-loop/lid; other site 167879009428 ABC transporter signature motif; other site 167879009429 Walker B; other site 167879009430 D-loop; other site 167879009431 H-loop/switch region; other site 167879009432 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 167879009433 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 167879009434 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 167879009435 dimer interface [polypeptide binding]; other site 167879009436 conserved gate region; other site 167879009437 putative PBP binding loops; other site 167879009438 ABC-ATPase subunit interface; other site 167879009439 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 167879009440 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 167879009441 conserved gate region; other site 167879009442 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 167879009443 putative PBP binding loops; other site 167879009444 ABC-ATPase subunit interface; other site 167879009445 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 167879009446 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 167879009447 NAD binding site [chemical binding]; other site 167879009448 substrate binding site [chemical binding]; other site 167879009449 homodimer interface [polypeptide binding]; other site 167879009450 active site 167879009451 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 167879009452 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 167879009453 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 167879009454 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 167879009455 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 167879009456 SLBB domain; Region: SLBB; pfam10531 167879009457 SLBB domain; Region: SLBB; pfam10531 167879009458 SLBB domain; Region: SLBB; pfam10531 167879009459 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 167879009460 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 167879009461 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 167879009462 putative substrate translocation pore; other site 167879009463 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 167879009464 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 167879009465 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 167879009466 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 167879009467 probable active site [active] 167879009468 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 167879009469 Protein of unknown function (DUF3549); Region: DUF3549; pfam12069 167879009470 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 167879009471 DGC domain; Region: DGC; pfam08859 167879009472 cobyric acid synthase; Provisional; Region: PRK00784 167879009473 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 167879009474 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 167879009475 catalytic triad [active] 167879009476 Histidine phosphatase superfamily (branch 1); Region: His_Phos_1; pfam00300 167879009477 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 167879009478 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 167879009479 homotrimer interface [polypeptide binding]; other site 167879009480 Walker A motif; other site 167879009481 GTP binding site [chemical binding]; other site 167879009482 Walker B motif; other site 167879009483 cobalamin synthase; Reviewed; Region: cobS; PRK00235 167879009484 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 167879009485 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 167879009486 active site pocket [active] 167879009487 putative dimer interface [polypeptide binding]; other site 167879009488 putative cataytic base [active] 167879009489 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 167879009490 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 167879009491 ATP binding site [chemical binding]; other site 167879009492 Walker B motif; other site 167879009493 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 167879009494 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 167879009495 Walker A motif; other site 167879009496 ATP binding site [chemical binding]; other site 167879009497 Walker B motif; other site 167879009498 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 167879009499 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 167879009500 catalytic residue [active] 167879009501 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 167879009502 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 167879009503 YGGT family; Region: YGGT; pfam02325 167879009504 YGGT family; Region: YGGT; pfam02325 167879009505 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 167879009506 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 167879009507 active site 167879009508 dimerization interface [polypeptide binding]; other site 167879009509 HemN family oxidoreductase; Provisional; Region: PRK05660 167879009510 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 167879009511 FeS/SAM binding site; other site 167879009512 HemN C-terminal domain; Region: HemN_C; pfam06969 167879009513 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 167879009514 nucleoside/Zn binding site; other site 167879009515 dimer interface [polypeptide binding]; other site 167879009516 catalytic motif [active] 167879009517 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 167879009518 Catalytic domain of Protein Kinases; Region: PKc; cd00180 167879009519 active site 167879009520 ATP binding site [chemical binding]; other site 167879009521 substrate binding site [chemical binding]; other site 167879009522 activation loop (A-loop); other site 167879009523 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 167879009524 active site 167879009525 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 167879009526 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 167879009527 substrate binding pocket [chemical binding]; other site 167879009528 membrane-bound complex binding site; other site 167879009529 hinge residues; other site 167879009530 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 167879009531 N-acetyl-D-glucosamine binding site [chemical binding]; other site 167879009532 catalytic residue [active] 167879009533 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 167879009534 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 167879009535 dimerization interface [polypeptide binding]; other site 167879009536 ATP binding site [chemical binding]; other site 167879009537 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 167879009538 dimerization interface [polypeptide binding]; other site 167879009539 ATP binding site [chemical binding]; other site 167879009540 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 167879009541 putative active site [active] 167879009542 catalytic triad [active] 167879009543 Iodotyrosine dehalogenase catalyzes the removal of iodine from the 3, 5 positions of L-tyosine in thyroid, liver and kidney, using NADPH as electron donor. This enzyme is a homolog of the nitroreductase family. These enzymes are usually homodimers; Region: iodotyrosine_dehalogenase; cd02144 167879009544 putative FMN binding site [chemical binding]; other site 167879009545 putative dimer interface [polypeptide binding]; other site 167879009546 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 167879009547 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 167879009548 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 167879009549 active site 167879009550 dihydrodipicolinate synthase; Region: dapA; TIGR00674 167879009551 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 167879009552 dimer interface [polypeptide binding]; other site 167879009553 active site 167879009554 catalytic residue [active] 167879009555 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 167879009556 competence damage-inducible protein A; Provisional; Region: PRK00549 167879009557 putative MPT binding site; other site 167879009558 Competence-damaged protein; Region: CinA; pfam02464 167879009559 Protein of unknown function (DUF342); Region: DUF342; pfam03961 167879009560 hypothetical protein; Provisional; Region: PRK10626 167879009561 Protein of unknown function (DUF2884); Region: DUF2884; pfam11101 167879009562 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 167879009563 hydroxyglutarate oxidase; Provisional; Region: PRK11728 167879009564 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 167879009565 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 167879009566 Ligand binding site [chemical binding]; other site 167879009567 Electron transfer flavoprotein domain; Region: ETF; pfam01012 167879009568 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 167879009569 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 167879009570 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 167879009571 translation initiation factor Sui1; Validated; Region: PRK06824 167879009572 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 167879009573 putative rRNA binding site [nucleotide binding]; other site 167879009574 recombination protein RecR; Reviewed; Region: recR; PRK00076 167879009575 RecR protein; Region: RecR; pfam02132 167879009576 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 167879009577 putative active site [active] 167879009578 putative metal-binding site [ion binding]; other site 167879009579 tetramer interface [polypeptide binding]; other site 167879009580 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 167879009581 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 167879009582 PA14 domain; Region: PA14; cl08459 167879009583 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 167879009584 Domon-like ligand-binding domains; Region: DOMON_like; cd00241 167879009585 putative ligand binding site [chemical binding]; other site 167879009586 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 167879009587 AAA domain; Region: AAA_33; pfam13671 167879009588 ATP-binding site [chemical binding]; other site 167879009589 Gluconate-6-phosphate binding site [chemical binding]; other site 167879009590 Glycoside hydrolase family 94 N-terminal-like domain of NdvB-like proteins; Region: GH94N_NdvB_like; cd11748 167879009591 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 167879009592 MFS/sugar transport protein; Region: MFS_2; pfam13347 167879009593 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 167879009594 putative substrate translocation pore; other site 167879009595 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 167879009596 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 167879009597 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 167879009598 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 167879009599 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 167879009600 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 167879009601 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 167879009602 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 167879009603 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 167879009604 putative substrate translocation pore; other site 167879009605 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 167879009606 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 167879009607 beta-galactosidase; Region: BGL; TIGR03356 167879009608 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 167879009609 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 167879009610 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 167879009611 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 167879009612 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 167879009613 Transcriptional regulators [Transcription]; Region: PurR; COG1609 167879009614 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 167879009615 DNA binding site [nucleotide binding] 167879009616 domain linker motif; other site 167879009617 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 167879009618 dimerization interface (closed form) [polypeptide binding]; other site 167879009619 ligand binding site [chemical binding]; other site 167879009620 glucokinase, proteobacterial type; Region: glk; TIGR00749 167879009621 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 167879009622 nucleotide binding site [chemical binding]; other site 167879009623 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 167879009624 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 167879009625 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 167879009626 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 167879009627 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 167879009628 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 167879009629 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 167879009630 O-Glycosyl hydrolase [Cell envelope biogenesis, outer membrane]; Region: COG5520 167879009631 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 167879009632 Domon-like ligand-binding domains; Region: DOMON_like; cd00241 167879009633 putative ligand binding site [chemical binding]; other site 167879009634 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 167879009635 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 167879009636 active site 167879009637 catalytic residues [active] 167879009638 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 167879009639 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 167879009640 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 167879009641 active site 167879009642 phosphorylation site [posttranslational modification] 167879009643 intermolecular recognition site; other site 167879009644 dimerization interface [polypeptide binding]; other site 167879009645 LytTr DNA-binding domain; Region: LytTR; smart00850 167879009646 Histidine kinase; Region: His_kinase; pfam06580 167879009647 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 167879009648 ATP binding site [chemical binding]; other site 167879009649 Mg2+ binding site [ion binding]; other site 167879009650 G-X-G motif; other site 167879009651 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]; Region: COG5309 167879009652 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]; Region: COG5309 167879009653 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 167879009654 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 167879009655 active site 167879009656 catalytic residues [active] 167879009657 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 167879009658 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 167879009659 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 167879009660 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 167879009661 active site 167879009662 catalytic residues [active] 167879009663 short chain dehydrogenase; Provisional; Region: PRK08303 167879009664 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 167879009665 NAD(P) binding site [chemical binding]; other site 167879009666 active site 167879009667 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 167879009668 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_10; cd07251 167879009669 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 167879009670 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 167879009671 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 167879009672 putative symporter YagG; Provisional; Region: PRK09669 167879009673 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 167879009674 Cupin-like domain; Region: Cupin_8; pfam13621 167879009675 SapC; Region: SapC; pfam07277 167879009676 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 167879009677 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 167879009678 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 167879009679 MFS/sugar transport protein; Region: MFS_2; pfam13347 167879009680 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 167879009681 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 167879009682 putative substrate translocation pore; other site 167879009683 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 167879009684 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 167879009685 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 167879009686 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 167879009687 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 167879009688 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 167879009689 hypothetical protein; Validated; Region: PRK00153 167879009690 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 167879009691 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 167879009692 Walker A motif; other site 167879009693 ATP binding site [chemical binding]; other site 167879009694 Walker B motif; other site 167879009695 arginine finger; other site 167879009696 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 167879009697 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 167879009698 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 167879009699 active site 167879009700 Response regulator receiver domain; Region: Response_reg; pfam00072 167879009701 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 167879009702 active site 167879009703 phosphorylation site [posttranslational modification] 167879009704 intermolecular recognition site; other site 167879009705 dimerization interface [polypeptide binding]; other site 167879009706 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 167879009707 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 167879009708 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 167879009709 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 167879009710 binding surface 167879009711 TPR motif; other site 167879009712 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 167879009713 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 167879009714 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 167879009715 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 167879009716 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 167879009717 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 167879009718 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 167879009719 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 167879009720 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 167879009721 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 167879009722 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 167879009723 Primosomal replication protein priB and priC; Region: priB_priC; cl11483 167879009724 Late competence development protein ComFB; Region: ComFB; pfam10719 167879009725 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 167879009726 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 167879009727 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 167879009728 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 167879009729 Protein of unknown function (DUF3014); Region: DUF3014; pfam11219 167879009730 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 167879009731 maleylacetoacetate isomerase; Region: maiA; TIGR01262 167879009732 C-terminal domain interface [polypeptide binding]; other site 167879009733 GSH binding site (G-site) [chemical binding]; other site 167879009734 putative dimer interface [polypeptide binding]; other site 167879009735 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 167879009736 dimer interface [polypeptide binding]; other site 167879009737 N-terminal domain interface [polypeptide binding]; other site 167879009738 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 167879009739 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 167879009740 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 167879009741 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 167879009742 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 167879009743 putative aromatic amino acid binding site; other site 167879009744 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 167879009745 Walker A motif; other site 167879009746 ATP binding site [chemical binding]; other site 167879009747 Walker B motif; other site 167879009748 arginine finger; other site 167879009749 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_a; cd00913 167879009750 aromatic arch; other site 167879009751 DCoH dimer interaction site [polypeptide binding]; other site 167879009752 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 167879009753 DCoH tetramer interaction site [polypeptide binding]; other site 167879009754 substrate binding site [chemical binding]; other site 167879009755 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH); Region: pro_PheOH; cd03348 167879009756 cofactor binding site; other site 167879009757 metal binding site [ion binding]; metal-binding site 167879009758 hypothetical protein; Provisional; Region: PRK05415 167879009759 Domain of unknown function (DUF697); Region: DUF697; pfam05128 167879009760 YcjX-like family, DUF463; Region: DUF463; pfam04317 167879009761 phage shock protein C; Region: phageshock_pspC; TIGR02978 167879009762 PspC domain; Region: PspC; pfam04024 167879009763 phage shock protein B; Provisional; Region: pspB; PRK09458 167879009764 phage shock protein A; Region: phageshock_pspA; TIGR02977 167879009765 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 167879009766 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 167879009767 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 167879009768 Walker A motif; other site 167879009769 ATP binding site [chemical binding]; other site 167879009770 Walker B motif; other site 167879009771 arginine finger; other site 167879009772 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 167879009773 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 167879009774 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 167879009775 peptide binding site [polypeptide binding]; other site 167879009776 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 167879009777 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 167879009778 dimer interface [polypeptide binding]; other site 167879009779 conserved gate region; other site 167879009780 putative PBP binding loops; other site 167879009781 ABC-ATPase subunit interface; other site 167879009782 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapC; COG4171 167879009783 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 167879009784 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 167879009785 dimer interface [polypeptide binding]; other site 167879009786 conserved gate region; other site 167879009787 putative PBP binding loops; other site 167879009788 ABC-ATPase subunit interface; other site 167879009789 antimicrobial peptide ABC transporter ATP-binding protein; Provisional; Region: PRK15093 167879009790 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 167879009791 Walker A/P-loop; other site 167879009792 ATP binding site [chemical binding]; other site 167879009793 Q-loop/lid; other site 167879009794 ABC transporter signature motif; other site 167879009795 Walker B; other site 167879009796 D-loop; other site 167879009797 H-loop/switch region; other site 167879009798 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 167879009799 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 167879009800 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 167879009801 Walker A/P-loop; other site 167879009802 ATP binding site [chemical binding]; other site 167879009803 Q-loop/lid; other site 167879009804 ABC transporter signature motif; other site 167879009805 Walker B; other site 167879009806 D-loop; other site 167879009807 H-loop/switch region; other site 167879009808 periplasmic folding chaperone; Provisional; Region: PRK10788 167879009809 SurA N-terminal domain; Region: SurA_N_3; cl07813 167879009810 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 167879009811 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 167879009812 IHF dimer interface [polypeptide binding]; other site 167879009813 IHF - DNA interface [nucleotide binding]; other site 167879009814 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 167879009815 Found in ATP-dependent protease La (LON); Region: LON; smart00464 167879009816 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 167879009817 Walker A motif; other site 167879009818 ATP binding site [chemical binding]; other site 167879009819 Walker B motif; other site 167879009820 arginine finger; other site 167879009821 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 167879009822 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 167879009823 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 167879009824 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 167879009825 Walker A motif; other site 167879009826 ATP binding site [chemical binding]; other site 167879009827 Walker B motif; other site 167879009828 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 167879009829 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 167879009830 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 167879009831 oligomer interface [polypeptide binding]; other site 167879009832 active site residues [active] 167879009833 trigger factor; Provisional; Region: tig; PRK01490 167879009834 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 167879009835 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 167879009836 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 167879009837 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 167879009838 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 167879009839 homodimer interface [polypeptide binding]; other site 167879009840 NADP binding site [chemical binding]; other site 167879009841 substrate binding site [chemical binding]; other site 167879009842 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 167879009843 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 167879009844 active site 167879009845 HIGH motif; other site 167879009846 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 167879009847 KMSKS motif; other site 167879009848 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 167879009849 tRNA binding surface [nucleotide binding]; other site 167879009850 anticodon binding site; other site 167879009851 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 167879009852 substrate binding site [chemical binding]; other site 167879009853 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 167879009854 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 167879009855 putative active site [active] 167879009856 putative metal binding site [ion binding]; other site 167879009857 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 167879009858 active site 167879009859 dinuclear metal binding site [ion binding]; other site 167879009860 dimerization interface [polypeptide binding]; other site 167879009861 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 167879009862 amidophosphoribosyltransferase; Provisional; Region: PRK09246 167879009863 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 167879009864 active site 167879009865 tetramer interface [polypeptide binding]; other site 167879009866 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 167879009867 active site 167879009868 Colicin V production protein; Region: Colicin_V; cl00567 167879009869 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 167879009870 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DedD; COG3147 167879009871 Sporulation related domain; Region: SPOR; pfam05036 167879009872 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 167879009873 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 167879009874 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 167879009875 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 167879009876 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 167879009877 dimerization interface 3.5A [polypeptide binding]; other site 167879009878 active site 167879009879 FimV N-terminal domain; Region: FimV_core; TIGR03505 167879009880 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 167879009881 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 167879009882 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 167879009883 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 167879009884 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 167879009885 ligand binding site [chemical binding]; other site 167879009886 NAD binding site [chemical binding]; other site 167879009887 catalytic site [active] 167879009888 homodimer interface [polypeptide binding]; other site 167879009889 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 167879009890 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 167879009891 dimer interface [polypeptide binding]; other site 167879009892 active site 167879009893 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 167879009894 Uncharacterized conserved protein [Function unknown]; Region: COG4121 167879009895 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 167879009896 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 167879009897 YfcL protein; Region: YfcL; pfam08891 167879009898 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 167879009899 ATP-NAD kinase; Region: NAD_kinase; pfam01513 167879009900 Protein of unknown function, DUF462; Region: DUF462; pfam04315 167879009901 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 167879009902 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 167879009903 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 167879009904 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 167879009905 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 167879009906 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 167879009907 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 167879009908 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 167879009909 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 167879009910 Domain of unknown function (DUF4040); Region: DUF4040; pfam13244 167879009911 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12573 167879009912 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 167879009913 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 167879009914 putative DNA binding site [nucleotide binding]; other site 167879009915 putative Zn2+ binding site [ion binding]; other site 167879009916 AsnC family; Region: AsnC_trans_reg; pfam01037 167879009917 chaperone protein DnaJ; Provisional; Region: PRK10767 167879009918 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 167879009919 HSP70 interaction site [polypeptide binding]; other site 167879009920 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 167879009921 substrate binding site [polypeptide binding]; other site 167879009922 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 167879009923 Zn binding sites [ion binding]; other site 167879009924 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 167879009925 dimer interface [polypeptide binding]; other site 167879009926 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 167879009927 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 167879009928 nucleotide binding site [chemical binding]; other site 167879009929 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 167879009930 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 167879009931 catalytic residues [active] 167879009932 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 167879009933 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 167879009934 dimer interface [polypeptide binding]; other site 167879009935 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 167879009936 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03378 167879009937 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 167879009938 recombination and repair protein; Provisional; Region: PRK10869 167879009939 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 167879009940 Walker A/P-loop; other site 167879009941 ATP binding site [chemical binding]; other site 167879009942 Q-loop/lid; other site 167879009943 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 167879009944 ABC transporter signature motif; other site 167879009945 Walker B; other site 167879009946 D-loop; other site 167879009947 H-loop/switch region; other site 167879009948 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 167879009949 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 167879009950 hypothetical protein; Validated; Region: PRK01777 167879009951 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 167879009952 putative coenzyme Q binding site [chemical binding]; other site 167879009953 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 167879009954 SmpB-tmRNA interface; other site 167879009955 Protein of unknown function (DUF3083); Region: DUF3083; pfam11281 167879009956 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 167879009957 NADH(P)-binding; Region: NAD_binding_10; pfam13460 167879009958 NAD binding site [chemical binding]; other site 167879009959 active site 167879009960 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 167879009961 active site 167879009962 Predicted transcriptional regulators [Transcription]; Region: COG1510 167879009963 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 167879009964 putative DNA binding site [nucleotide binding]; other site 167879009965 putative Zn2+ binding site [ion binding]; other site 167879009966 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 167879009967 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 167879009968 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 167879009969 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 167879009970 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 167879009971 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 167879009972 dimerization interface [polypeptide binding]; other site 167879009973 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 167879009974 dimer interface [polypeptide binding]; other site 167879009975 putative CheW interface [polypeptide binding]; other site 167879009976 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 167879009977 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 167879009978 substrate binding pocket [chemical binding]; other site 167879009979 membrane-bound complex binding site; other site 167879009980 hinge residues; other site 167879009981 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 167879009982 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 167879009983 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 167879009984 amino acid carrier protein; Region: agcS; TIGR00835 167879009985 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 167879009986 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 167879009987 non-specific DNA binding site [nucleotide binding]; other site 167879009988 salt bridge; other site 167879009989 sequence-specific DNA binding site [nucleotide binding]; other site 167879009990 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 167879009991 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 167879009992 dimer interface [polypeptide binding]; other site 167879009993 active site 167879009994 glycine-pyridoxal phosphate binding site [chemical binding]; other site 167879009995 folate binding site [chemical binding]; other site 167879009996 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 167879009997 lipoyl attachment site [posttranslational modification]; other site 167879009998 glycine dehydrogenase; Provisional; Region: PRK05367 167879009999 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 167879010000 tetramer interface [polypeptide binding]; other site 167879010001 pyridoxal 5'-phosphate binding site [chemical binding]; other site 167879010002 catalytic residue [active] 167879010003 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 167879010004 tetramer interface [polypeptide binding]; other site 167879010005 pyridoxal 5'-phosphate binding site [chemical binding]; other site 167879010006 catalytic residue [active] 167879010007 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 167879010008 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 167879010009 trimer interface [polypeptide binding]; other site 167879010010 eyelet of channel; other site 167879010011 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 167879010012 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 167879010013 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 167879010014 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 167879010015 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 167879010016 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 167879010017 DNA binding residues [nucleotide binding] 167879010018 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 167879010019 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 167879010020 NAD binding site [chemical binding]; other site 167879010021 substrate binding site [chemical binding]; other site 167879010022 catalytic Zn binding site [ion binding]; other site 167879010023 tetramer interface [polypeptide binding]; other site 167879010024 structural Zn binding site [ion binding]; other site 167879010025 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 167879010026 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 167879010027 homotrimer interaction site [polypeptide binding]; other site 167879010028 putative active site [active] 167879010029 BCCT family transporter; Region: BCCT; pfam02028 167879010030 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 167879010031 Membrane dipeptidase (Peptidase family M19); Region: Peptidase_M19; pfam01244 167879010032 active site 167879010033 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 167879010034 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 167879010035 NAD(P) binding site [chemical binding]; other site 167879010036 catalytic residues [active] 167879010037 Transcriptional regulator [Transcription]; Region: LysR; COG0583 167879010038 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879010039 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 167879010040 putative dimerization interface [polypeptide binding]; other site 167879010041 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 167879010042 dimerization interface [polypeptide binding]; other site 167879010043 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 167879010044 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 167879010045 dimer interface [polypeptide binding]; other site 167879010046 putative CheW interface [polypeptide binding]; other site 167879010047 Protein of unknown function (DUF3726); Region: DUF3726; pfam12525 167879010048 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 167879010049 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 167879010050 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 167879010051 putative molybdopterin cofactor binding site [chemical binding]; other site 167879010052 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 167879010053 putative molybdopterin cofactor binding site; other site 167879010054 CHASE domain; Region: CHASE; pfam03924 167879010055 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 167879010056 transketolase; Reviewed; Region: PRK12753 167879010057 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 167879010058 TPP-binding site [chemical binding]; other site 167879010059 dimer interface [polypeptide binding]; other site 167879010060 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 167879010061 PYR/PP interface [polypeptide binding]; other site 167879010062 dimer interface [polypeptide binding]; other site 167879010063 TPP binding site [chemical binding]; other site 167879010064 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 167879010065 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 167879010066 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 167879010067 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 167879010068 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 167879010069 Phosphoglycerate kinase; Region: PGK; pfam00162 167879010070 substrate binding site [chemical binding]; other site 167879010071 hinge regions; other site 167879010072 ADP binding site [chemical binding]; other site 167879010073 catalytic site [active] 167879010074 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 167879010075 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 167879010076 intersubunit interface [polypeptide binding]; other site 167879010077 active site 167879010078 zinc binding site [ion binding]; other site 167879010079 Na+ binding site [ion binding]; other site 167879010080 Protein of unknown function, DUF481; Region: DUF481; pfam04338 167879010081 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 167879010082 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 167879010083 substrate binding pocket [chemical binding]; other site 167879010084 membrane-bound complex binding site; other site 167879010085 E3 ubiquitin-protein ligase SlrP; Provisional; Region: PRK15370 167879010086 E3 ubiquitin-protein ligase SlrP; Provisional; Region: PRK15370 167879010087 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 167879010088 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 167879010089 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 167879010090 ABC transporter; Region: ABC_tran_2; pfam12848 167879010091 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 167879010092 PilZ domain; Region: PilZ; pfam07238 167879010093 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 167879010094 ACT domain; Region: ACT_6; pfam13740 167879010095 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 167879010096 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 167879010097 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 167879010098 ATP binding site [chemical binding]; other site 167879010099 DEAD_2; Region: DEAD_2; pfam06733 167879010100 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 167879010101 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 167879010102 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 167879010103 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 167879010104 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 167879010105 histidinol dehydrogenase; Region: hisD; TIGR00069 167879010106 NAD binding site [chemical binding]; other site 167879010107 dimerization interface [polypeptide binding]; other site 167879010108 product binding site; other site 167879010109 substrate binding site [chemical binding]; other site 167879010110 zinc binding site [ion binding]; other site 167879010111 catalytic residues [active] 167879010112 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 167879010113 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 167879010114 pyridoxal 5'-phosphate binding site [chemical binding]; other site 167879010115 homodimer interface [polypeptide binding]; other site 167879010116 catalytic residue [active] 167879010117 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 167879010118 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 167879010119 active site 167879010120 motif I; other site 167879010121 motif II; other site 167879010122 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 167879010123 putative active site pocket [active] 167879010124 4-fold oligomerization interface [polypeptide binding]; other site 167879010125 metal binding residues [ion binding]; metal-binding site 167879010126 3-fold/trimer interface [polypeptide binding]; other site 167879010127 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 167879010128 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 167879010129 putative active site [active] 167879010130 oxyanion strand; other site 167879010131 catalytic triad [active] 167879010132 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 167879010133 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 167879010134 catalytic residues [active] 167879010135 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 167879010136 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 167879010137 substrate binding site [chemical binding]; other site 167879010138 glutamase interaction surface [polypeptide binding]; other site 167879010139 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 167879010140 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 167879010141 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 167879010142 metal binding site [ion binding]; metal-binding site 167879010143 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 167879010144 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 167879010145 Coenzyme A binding pocket [chemical binding]; other site 167879010146 adenylate kinase; Reviewed; Region: adk; PRK00279 167879010147 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 167879010148 AMP-binding site [chemical binding]; other site 167879010149 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 167879010150 heat shock protein 90; Provisional; Region: PRK05218 167879010151 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 167879010152 ATP binding site [chemical binding]; other site 167879010153 Mg2+ binding site [ion binding]; other site 167879010154 G-X-G motif; other site 167879010155 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 167879010156 Peptidase S8 family domain, uncharacterized subfamily 3; Region: Peptidases_S8_3; cd04852 167879010157 active site 167879010158 catalytic triad [active] 167879010159 PA_subtilisin_1: Protease-associated domain containing subtilisin-like proteases, subgroup 1. A subgroup of PA domain-containing subtilisin-like proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined; Region: PA_subtilisin_1; cd04818 167879010160 PA/protease or protease-like domain interface [polypeptide binding]; other site 167879010161 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 167879010162 catalytic residues [active] 167879010163 PEP-CTERM protein-sorting domain; Region: PEP_exosort; TIGR02595 167879010164 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 167879010165 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 167879010166 Clp amino terminal domain; Region: Clp_N; pfam02861 167879010167 Clp amino terminal domain; Region: Clp_N; pfam02861 167879010168 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 167879010169 Walker A motif; other site 167879010170 ATP binding site [chemical binding]; other site 167879010171 Walker B motif; other site 167879010172 arginine finger; other site 167879010173 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 167879010174 Walker A motif; other site 167879010175 ATP binding site [chemical binding]; other site 167879010176 Walker B motif; other site 167879010177 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 167879010178 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 167879010179 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 167879010180 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 167879010181 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 167879010182 RNA binding surface [nucleotide binding]; other site 167879010183 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 167879010184 active site 167879010185 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 167879010186 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 167879010187 Nitrogen regulatory protein P-II; Region: P-II; smart00938 167879010188 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 167879010189 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 167879010190 homodimer interface [polypeptide binding]; other site 167879010191 NAD binding pocket [chemical binding]; other site 167879010192 ATP binding pocket [chemical binding]; other site 167879010193 Mg binding site [ion binding]; other site 167879010194 active-site loop [active] 167879010195 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 167879010196 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 167879010197 Type II transport protein GspH; Region: GspH; pfam12019 167879010198 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 167879010199 RNA recognition motif; Region: RRM; smart00360 167879010200 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 167879010201 putative substrate binding pocket [chemical binding]; other site 167879010202 trimer interface [polypeptide binding]; other site 167879010203 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879010204 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879010205 metal binding site [ion binding]; metal-binding site 167879010206 active site 167879010207 I-site; other site 167879010208 PAS domain S-box; Region: sensory_box; TIGR00229 167879010209 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; cd00130 167879010210 putative active site [active] 167879010211 heme pocket [chemical binding]; other site 167879010212 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879010213 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879010214 metal binding site [ion binding]; metal-binding site 167879010215 active site 167879010216 I-site; other site 167879010217 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 167879010218 dimerization interface [polypeptide binding]; other site 167879010219 PAS fold; Region: PAS_4; pfam08448 167879010220 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; cd00130 167879010221 putative active site [active] 167879010222 heme pocket [chemical binding]; other site 167879010223 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; cd00130 167879010224 PAS domain; Region: PAS_9; pfam13426 167879010225 putative active site [active] 167879010226 heme pocket [chemical binding]; other site 167879010227 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879010228 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879010229 metal binding site [ion binding]; metal-binding site 167879010230 active site 167879010231 I-site; other site 167879010232 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 167879010233 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 167879010234 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 167879010235 dimerization interface [polypeptide binding]; other site 167879010236 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 167879010237 dimer interface [polypeptide binding]; other site 167879010238 putative CheW interface [polypeptide binding]; other site 167879010239 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 167879010240 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 167879010241 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 167879010242 HlyD family secretion protein; Region: HlyD_3; pfam13437 167879010243 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; cd00130 167879010244 PAS domain; Region: PAS_9; pfam13426 167879010245 putative active site [active] 167879010246 heme pocket [chemical binding]; other site 167879010247 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 167879010248 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 167879010249 dimer interface [polypeptide binding]; other site 167879010250 putative CheW interface [polypeptide binding]; other site 167879010251 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 167879010252 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 167879010253 metal binding site [ion binding]; metal-binding site 167879010254 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 167879010255 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 167879010256 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; cd00016 167879010257 Alkaline phosphatase homologues; Region: alkPPc; smart00098 167879010258 active site 167879010259 dimer interface [polypeptide binding]; other site 167879010260 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; cd00016 167879010261 dimer interface [polypeptide binding]; other site 167879010262 Alkaline phosphatase homologues; Region: alkPPc; smart00098 167879010263 active site 167879010264 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 167879010265 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 167879010266 DNA-binding site [nucleotide binding]; DNA binding site 167879010267 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 167879010268 pyridoxal 5'-phosphate binding site [chemical binding]; other site 167879010269 homodimer interface [polypeptide binding]; other site 167879010270 catalytic residue [active] 167879010271 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 167879010272 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 167879010273 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 167879010274 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 167879010275 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 167879010276 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 167879010277 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 167879010278 FMN-binding pocket [chemical binding]; other site 167879010279 flavin binding motif; other site 167879010280 phosphate binding motif [ion binding]; other site 167879010281 beta-alpha-beta structure motif; other site 167879010282 NAD binding pocket [chemical binding]; other site 167879010283 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 167879010284 catalytic loop [active] 167879010285 iron binding site [ion binding]; other site 167879010286 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 167879010287 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 167879010288 Transcriptional regulator [Transcription]; Region: LysR; COG0583 167879010289 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879010290 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_2; cd08471 167879010291 putative effector binding pocket; other site 167879010292 putative dimerization interface [polypeptide binding]; other site 167879010293 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 167879010294 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 167879010295 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879010296 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 167879010297 dimerization interface [polypeptide binding]; other site 167879010298 substrate binding pocket [chemical binding]; other site 167879010299 SnoaL-like domain; Region: SnoaL_2; pfam12680 167879010300 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 167879010301 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 167879010302 active site 167879010303 phosphorylation site [posttranslational modification] 167879010304 intermolecular recognition site; other site 167879010305 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879010306 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879010307 metal binding site [ion binding]; metal-binding site 167879010308 active site 167879010309 I-site; other site 167879010310 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 167879010311 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 167879010312 active site 167879010313 phosphorylation site [posttranslational modification] 167879010314 intermolecular recognition site; other site 167879010315 CHASE domain; Region: CHASE; pfam03924 167879010316 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 167879010317 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 167879010318 dimer interface [polypeptide binding]; other site 167879010319 phosphorylation site [posttranslational modification] 167879010320 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 167879010321 ATP binding site [chemical binding]; other site 167879010322 Mg2+ binding site [ion binding]; other site 167879010323 G-X-G motif; other site 167879010324 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 167879010325 Chorismate mutase type II; Region: CM_2; cl00693 167879010326 prephenate dehydrogenase; Validated; Region: PRK08507 167879010327 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 167879010328 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 167879010329 acetyl-CoA synthetase; Provisional; Region: PRK00174 167879010330 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 167879010331 active site 167879010332 CoA binding site [chemical binding]; other site 167879010333 acyl-activating enzyme (AAE) consensus motif; other site 167879010334 AMP binding site [chemical binding]; other site 167879010335 acetate binding site [chemical binding]; other site 167879010336 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 167879010337 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 167879010338 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 167879010339 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 167879010340 FecR protein; Region: FecR; pfam04773 167879010341 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 167879010342 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 167879010343 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 167879010344 DNA binding residues [nucleotide binding] 167879010345 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 167879010346 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 167879010347 active site 167879010348 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 167879010349 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 167879010350 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 167879010351 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 167879010352 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 167879010353 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 167879010354 TAP-like protein; Region: Abhydrolase_4; pfam08386 167879010355 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; pfam09996 167879010356 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3055 167879010357 Kelch motif; Region: Kelch_6; pfam13964 167879010358 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 167879010359 penicillin-binding protein 1C; Provisional; Region: PRK11240 167879010360 Transglycosylase; Region: Transgly; pfam00912 167879010361 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 167879010362 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 167879010363 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 167879010364 MG2 domain; Region: A2M_N; pfam01835 167879010365 Alpha-2-macroglobulin family; Region: A2M; pfam00207 167879010366 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 167879010367 surface patch; other site 167879010368 thioester region; other site 167879010369 specificity defining residues; other site 167879010370 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 167879010371 TPR motif; other site 167879010372 binding surface 167879010373 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 167879010374 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 167879010375 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 167879010376 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 167879010377 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 167879010378 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 167879010379 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 167879010380 Transcriptional regulator [Transcription]; Region: LysR; COG0583 167879010381 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879010382 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 167879010383 putative effector binding pocket; other site 167879010384 dimerization interface [polypeptide binding]; other site 167879010385 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 167879010386 Old yellow enzyme (OYE)-related FMN binding domain, group 2. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_2_FMN; cd04733 167879010387 putative active site [active] 167879010388 putative FMN binding site [chemical binding]; other site 167879010389 putative substrate binding site [chemical binding]; other site 167879010390 putative catalytic residue [active] 167879010391 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 167879010392 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 167879010393 Sulfate transporter family; Region: Sulfate_transp; pfam00916 167879010394 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 167879010395 proteobacterial dedicated sortase system histidine kinase; Region: marine_sort_HK; TIGR03785 167879010396 DOMON-like type 9 carbohydrate binding module at the N-terminus of bacterial sensor histidine kinases; Region: CBM9_like_HisKa; cd09622 167879010397 putative ligand binding site [chemical binding]; other site 167879010398 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 167879010399 dimer interface [polypeptide binding]; other site 167879010400 phosphorylation site [posttranslational modification] 167879010401 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 167879010402 ATP binding site [chemical binding]; other site 167879010403 Mg2+ binding site [ion binding]; other site 167879010404 G-X-G motif; other site 167879010405 proteobacterial dedicated sortase system response regulator; Region: marine_sort_RR; TIGR03787 167879010406 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 167879010407 active site 167879010408 phosphorylation site [posttranslational modification] 167879010409 intermolecular recognition site; other site 167879010410 dimerization interface [polypeptide binding]; other site 167879010411 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 167879010412 DNA binding site [nucleotide binding] 167879010413 proteobacterial sortase system OmpA family protein; Region: pdsO; TIGR03789 167879010414 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 167879010415 ligand binding site [chemical binding]; other site 167879010416 Homo sapiens acid phosphatase 5 and related proteins, metallophosphatase domain; Region: MPP_ACP5; cd07378 167879010417 active site 167879010418 metal binding site [ion binding]; metal-binding site 167879010419 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 167879010420 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 167879010421 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 167879010422 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 167879010423 ligand-binding site [chemical binding]; other site 167879010424 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879010425 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879010426 metal binding site [ion binding]; metal-binding site 167879010427 active site 167879010428 I-site; other site 167879010429 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 167879010430 Helix-turn-helix domain; Region: HTH_18; pfam12833 167879010431 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 167879010432 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 167879010433 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 167879010434 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 167879010435 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 167879010436 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 167879010437 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 167879010438 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 167879010439 Domain of unknown function; Region: DUF331; pfam03889 167879010440 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 167879010441 DNA binding site [nucleotide binding] 167879010442 active site 167879010443 Int/Topo IB signature motif; other site 167879010444 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 167879010445 EamA-like transporter family; Region: EamA; pfam00892 167879010446 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 167879010447 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 167879010448 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 167879010449 Transcriptional regulators [Transcription]; Region: MarR; COG1846 167879010450 MarR family; Region: MarR; pfam01047 167879010451 MarR family; Region: MarR_2; cl17246 167879010452 conserved hypothetical protein, proteobacterial; Region: gcw_chp; TIGR02001 167879010453 BCCT family transporter; Region: BCCT; cl00569 167879010454 choline dehydrogenase; Validated; Region: PRK02106 167879010455 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 167879010456 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 167879010457 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 167879010458 NAD(P) binding site [chemical binding]; other site 167879010459 catalytic residues [active] 167879010460 transcriptional regulator BetI; Validated; Region: PRK00767 167879010461 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 167879010462 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 167879010463 Major Facilitator Superfamily; Region: MFS_1; pfam07690 167879010464 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 167879010465 putative substrate translocation pore; other site 167879010466 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 167879010467 Ligand Binding Site [chemical binding]; other site 167879010468 Electron transfer flavoprotein domain; Region: ETF; pfam01012 167879010469 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 167879010470 Ligand Binding Site [chemical binding]; other site 167879010471 Electron transfer flavoprotein domain; Region: ETF; smart00893 167879010472 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 167879010473 Domain of unknown function (DUF3483); Region: DUF3483; pfam11982 167879010474 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 167879010475 Cysteine-rich domain; Region: CCG; pfam02754 167879010476 Cysteine-rich domain; Region: CCG; pfam02754 167879010477 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 167879010478 Old yellow enzyme (OYE)-related FMN binding domain, group 3. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_3_FMN; cd04734 167879010479 putative active site [active] 167879010480 putative FMN binding site [chemical binding]; other site 167879010481 putative substrate binding site [chemical binding]; other site 167879010482 putative catalytic residue [active] 167879010483 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 167879010484 The V4R (vinyl 4 reductase) domain is a predicted small molecular binding domain, that may bind to hydrocarbons; Region: V4R; smart00989 167879010485 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 167879010486 Membrane dipeptidase (Peptidase family M19); Region: Peptidase_M19; pfam01244 167879010487 active site 167879010488 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 167879010489 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 167879010490 conserved cys residue [active] 167879010491 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 167879010492 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 167879010493 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a...; Region: TRX_Fd_NuoE_FDH_gamma; cd03081 167879010494 putative dimer interface [polypeptide binding]; other site 167879010495 [2Fe-2S] cluster binding site [ion binding]; other site 167879010496 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 167879010497 putative dimer interface [polypeptide binding]; other site 167879010498 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 167879010499 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 167879010500 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 167879010501 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 167879010502 catalytic loop [active] 167879010503 iron binding site [ion binding]; other site 167879010504 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 167879010505 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 167879010506 [4Fe-4S] binding site [ion binding]; other site 167879010507 molybdopterin cofactor binding site; other site 167879010508 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 167879010509 molybdopterin cofactor binding site; other site 167879010510 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 167879010511 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 167879010512 BCCT family transporter; Region: BCCT; pfam02028 167879010513 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 167879010514 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 167879010515 [2Fe-2S] cluster binding site [ion binding]; other site 167879010516 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 167879010517 putative alpha subunit interface [polypeptide binding]; other site 167879010518 putative active site [active] 167879010519 putative substrate binding site [chemical binding]; other site 167879010520 Fe binding site [ion binding]; other site 167879010521 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 167879010522 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 167879010523 FAD binding pocket [chemical binding]; other site 167879010524 FAD binding motif [chemical binding]; other site 167879010525 phosphate binding motif [ion binding]; other site 167879010526 beta-alpha-beta structure motif; other site 167879010527 NAD binding pocket [chemical binding]; other site 167879010528 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 167879010529 catalytic loop [active] 167879010530 iron binding site [ion binding]; other site 167879010531 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 167879010532 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 167879010533 dimer interface [polypeptide binding]; other site 167879010534 active site 167879010535 glycine-pyridoxal phosphate binding site [chemical binding]; other site 167879010536 folate binding site [chemical binding]; other site 167879010537 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 167879010538 hydroxyglutarate oxidase; Provisional; Region: PRK11728 167879010539 Sarcosine oxidase delta subunit [Amino acid transport and metabolism]; Region: SoxD; COG4311 167879010540 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 167879010541 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 167879010542 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 167879010543 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 167879010544 Sarcosine oxidase gamma subunit [Amino acid transport and metabolism]; Region: COG4583 167879010545 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK13010 167879010546 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 167879010547 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 167879010548 putative active site [active] 167879010549 putative substrate binding site [chemical binding]; other site 167879010550 putative cosubstrate binding site; other site 167879010551 catalytic site [active] 167879010552 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 167879010553 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 167879010554 non-specific DNA binding site [nucleotide binding]; other site 167879010555 salt bridge; other site 167879010556 sequence-specific DNA binding site [nucleotide binding]; other site 167879010557 Cupin domain; Region: Cupin_2; pfam07883 167879010558 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 167879010559 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 167879010560 NAD binding site [chemical binding]; other site 167879010561 catalytic Zn binding site [ion binding]; other site 167879010562 structural Zn binding site [ion binding]; other site 167879010563 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 167879010564 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 167879010565 allantoate amidohydrolase; Reviewed; Region: PRK12893 167879010566 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 167879010567 active site 167879010568 metal binding site [ion binding]; metal-binding site 167879010569 dimer interface [polypeptide binding]; other site 167879010570 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 167879010571 F420-dependent oxidoreductase, CPS_4043 family; Region: F420_CPS_4043; TIGR03842 167879010572 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 167879010573 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 167879010574 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; pfam01996 167879010575 2-phospho-L-lactate guanylyltransferase; Region: F420_cofC; TIGR03552 167879010576 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 167879010577 LPPG:FO 2-phospho-L-lactate transferase; important in F420 biosynthesis; Region: CofD_like; cd07186 167879010578 phosphate binding site [ion binding]; other site 167879010579 dimer interface [polypeptide binding]; other site 167879010580 substrate binding site [chemical binding]; other site 167879010581 7,8-didemethyl-8-hydroxy-5-deazariboflavin synthase, CofH subunit; Region: F420_cofH; TIGR03551 167879010582 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 167879010583 FeS/SAM binding site; other site 167879010584 7,8-didemethyl-8-hydroxy-5-deazariboflavin synthase, CofG subunit; Region: F420_cofG; TIGR03550 167879010585 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 167879010586 FeS/SAM binding site; other site 167879010587 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 167879010588 EamA-like transporter family; Region: EamA; pfam00892 167879010589 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 167879010590 Transcriptional regulator [Transcription]; Region: LysR; COG0583 167879010591 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879010592 LysR substrate binding domain; Region: LysR_substrate; pfam03466 167879010593 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 167879010594 phenylhydantoinase; Validated; Region: PRK08323 167879010595 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 167879010596 tetramer interface [polypeptide binding]; other site 167879010597 active site 167879010598 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily, YbbW-like; solute-binding domain; Region: SLC-NCS1sbd_YbbW-like; cd11485 167879010599 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 167879010600 Na binding site [ion binding]; other site 167879010601 putative substrate binding site [chemical binding]; other site 167879010602 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 167879010603 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 167879010604 inhibitor-cofactor binding pocket; inhibition site 167879010605 pyridoxal 5'-phosphate binding site [chemical binding]; other site 167879010606 catalytic residue [active] 167879010607 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 167879010608 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 167879010609 tetrameric interface [polypeptide binding]; other site 167879010610 NAD binding site [chemical binding]; other site 167879010611 catalytic residues [active] 167879010612 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 167879010613 dimerization interface [polypeptide binding]; other site 167879010614 active site 167879010615 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 167879010616 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 167879010617 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 167879010618 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 167879010619 homotrimer interaction site [polypeptide binding]; other site 167879010620 putative active site [active] 167879010621 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 167879010622 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 167879010623 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 167879010624 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 167879010625 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 167879010626 RimM N-terminal domain; Region: RimM; pfam01782 167879010627 PRC-barrel domain; Region: PRC; pfam05239 167879010628 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 167879010629 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879010630 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879010631 metal binding site [ion binding]; metal-binding site 167879010632 active site 167879010633 I-site; other site 167879010634 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 167879010635 signal recognition particle protein; Provisional; Region: PRK10867 167879010636 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 167879010637 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 167879010638 P loop; other site 167879010639 GTP binding site [chemical binding]; other site 167879010640 Signal peptide binding domain; Region: SRP_SPB; pfam02978 167879010641 Predicted permease; Region: DUF318; cl17795 167879010642 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 167879010643 Domain of unknown function DUF21; Region: DUF21; pfam01595 167879010644 hypothetical protein; Provisional; Region: PRK11573 167879010645 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 167879010646 Transporter associated domain; Region: CorC_HlyC; smart01091 167879010647 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 167879010648 N-acetyl-D-glucosamine binding site [chemical binding]; other site 167879010649 catalytic residue [active] 167879010650 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 167879010651 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 167879010652 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 167879010653 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 167879010654 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 167879010655 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 167879010656 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 167879010657 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 167879010658 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 167879010659 active site 167879010660 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 167879010661 Na2 binding site [ion binding]; other site 167879010662 putative substrate binding site 1 [chemical binding]; other site 167879010663 Na binding site 1 [ion binding]; other site 167879010664 putative substrate binding site 2 [chemical binding]; other site 167879010665 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 167879010666 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 167879010667 dimer interface [polypeptide binding]; other site 167879010668 putative anticodon binding site; other site 167879010669 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 167879010670 motif 1; other site 167879010671 active site 167879010672 motif 2; other site 167879010673 motif 3; other site 167879010674 peptide chain release factor 2; Validated; Region: prfB; PRK00578 167879010675 This domain is found in peptide chain release factors; Region: PCRF; smart00937 167879010676 RF-1 domain; Region: RF-1; pfam00472 167879010677 Phasin protein; Region: Phasin_2; cl11491 167879010678 phasin family protein; Region: phasin; TIGR01841 167879010679 phasin family protein; Region: phasin; TIGR01841 167879010680 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 167879010681 polyhydroxyalkanoate synthesis repressor PhaR; Region: PHA_reg_PhaR; TIGR01848 167879010682 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 167879010683 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 167879010684 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 167879010685 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 167879010686 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 167879010687 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 167879010688 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 167879010689 NAD(P) binding site [chemical binding]; other site 167879010690 active site 167879010691 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 167879010692 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 167879010693 NAD(P) binding site [chemical binding]; other site 167879010694 homotetramer interface [polypeptide binding]; other site 167879010695 homodimer interface [polypeptide binding]; other site 167879010696 active site 167879010697 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 167879010698 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 167879010699 DHH family; Region: DHH; pfam01368 167879010700 DHHA1 domain; Region: DHHA1; pfam02272 167879010701 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 167879010702 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 167879010703 dimerization domain [polypeptide binding]; other site 167879010704 dimer interface [polypeptide binding]; other site 167879010705 catalytic residues [active] 167879010706 flavodoxin FldB; Provisional; Region: PRK12359 167879010707 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 167879010708 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 167879010709 ATP binding site [chemical binding]; other site 167879010710 Mg++ binding site [ion binding]; other site 167879010711 motif III; other site 167879010712 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 167879010713 nucleotide binding region [chemical binding]; other site 167879010714 ATP-binding site [chemical binding]; other site 167879010715 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 167879010716 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 167879010717 amphipathic channel; other site 167879010718 Asn-Pro-Ala signature motifs; other site 167879010719 TIGR03545 family protein; Region: TIGR03545 167879010720 TIGR03546 family protein; Region: TIGR03546 167879010721 hypothetical protein; Validated; Region: PRK02101 167879010722 transaldolase-like protein; Provisional; Region: PTZ00411 167879010723 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 167879010724 active site 167879010725 dimer interface [polypeptide binding]; other site 167879010726 catalytic residue [active] 167879010727 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 167879010728 enolase; Provisional; Region: eno; PRK00077 167879010729 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 167879010730 dimer interface [polypeptide binding]; other site 167879010731 metal binding site [ion binding]; metal-binding site 167879010732 substrate binding pocket [chemical binding]; other site 167879010733 CTP synthetase; Validated; Region: pyrG; PRK05380 167879010734 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 167879010735 Catalytic site [active] 167879010736 active site 167879010737 UTP binding site [chemical binding]; other site 167879010738 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 167879010739 active site 167879010740 putative oxyanion hole; other site 167879010741 catalytic triad [active] 167879010742 Domain of unknown function (DUF4202); Region: DUF4202; pfam13875 167879010743 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 167879010744 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 167879010745 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 167879010746 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 167879010747 homodimer interface [polypeptide binding]; other site 167879010748 metal binding site [ion binding]; metal-binding site 167879010749 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 167879010750 homodimer interface [polypeptide binding]; other site 167879010751 active site 167879010752 putative chemical substrate binding site [chemical binding]; other site 167879010753 metal binding site [ion binding]; metal-binding site 167879010754 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 167879010755 HD domain; Region: HD_4; pfam13328 167879010756 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 167879010757 synthetase active site [active] 167879010758 NTP binding site [chemical binding]; other site 167879010759 metal binding site [ion binding]; metal-binding site 167879010760 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 167879010761 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 167879010762 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 167879010763 TRAM domain; Region: TRAM; pfam01938 167879010764 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 167879010765 S-adenosylmethionine binding site [chemical binding]; other site 167879010766 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 167879010767 Uncharacterized signal transduction histidine kinase domain (DUF2222); Region: DUF2222; pfam09984 167879010768 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 167879010769 dimerization interface [polypeptide binding]; other site 167879010770 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 167879010771 dimer interface [polypeptide binding]; other site 167879010772 phosphorylation site [posttranslational modification] 167879010773 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 167879010774 ATP binding site [chemical binding]; other site 167879010775 Mg2+ binding site [ion binding]; other site 167879010776 G-X-G motif; other site 167879010777 Uncharacterized domain of BarA-like signal transduction histidine kinases [Signal transduction mechanisms]; Region: COG4999 167879010778 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 167879010779 active site 167879010780 phosphorylation site [posttranslational modification] 167879010781 intermolecular recognition site; other site 167879010782 dimerization interface [polypeptide binding]; other site 167879010783 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 167879010784 putative binding surface; other site 167879010785 active site 167879010786 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 167879010787 active site 167879010788 hydrophilic channel; other site 167879010789 dimerization interface [polypeptide binding]; other site 167879010790 catalytic residues [active] 167879010791 active site lid [active] 167879010792 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 167879010793 Recombination protein O N terminal; Region: RecO_N; pfam11967 167879010794 Recombination protein O C terminal; Region: RecO_C; pfam02565 167879010795 GTPase Era; Reviewed; Region: era; PRK00089 167879010796 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 167879010797 G1 box; other site 167879010798 GTP/Mg2+ binding site [chemical binding]; other site 167879010799 Switch I region; other site 167879010800 G2 box; other site 167879010801 Switch II region; other site 167879010802 G3 box; other site 167879010803 G4 box; other site 167879010804 G5 box; other site 167879010805 KH domain; Region: KH_2; pfam07650 167879010806 ribonuclease III; Reviewed; Region: rnc; PRK00102 167879010807 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 167879010808 dimerization interface [polypeptide binding]; other site 167879010809 active site 167879010810 metal binding site [ion binding]; metal-binding site 167879010811 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 167879010812 dsRNA binding site [nucleotide binding]; other site 167879010813 signal peptidase I; Provisional; Region: PRK10861 167879010814 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 167879010815 Catalytic site [active] 167879010816 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 167879010817 GTP-binding protein LepA; Provisional; Region: PRK05433 167879010818 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 167879010819 G1 box; other site 167879010820 putative GEF interaction site [polypeptide binding]; other site 167879010821 GTP/Mg2+ binding site [chemical binding]; other site 167879010822 Switch I region; other site 167879010823 G2 box; other site 167879010824 G3 box; other site 167879010825 Switch II region; other site 167879010826 G4 box; other site 167879010827 G5 box; other site 167879010828 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 167879010829 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 167879010830 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 167879010831 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 167879010832 anti-sigma E factor; Provisional; Region: rseB; PRK09455 167879010833 MucB/RseB family; Region: MucB_RseB; pfam03888 167879010834 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 167879010835 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 167879010836 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 167879010837 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 167879010838 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 167879010839 DNA binding residues [nucleotide binding] 167879010840 L-aspartate oxidase; Provisional; Region: PRK09077 167879010841 L-aspartate oxidase; Provisional; Region: PRK06175 167879010842 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 167879010843 Uncharacterized conserved protein [Function unknown]; Region: COG2938 167879010844 putative global regulator; Reviewed; Region: PRK09559 167879010845 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 167879010846 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 167879010847 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 167879010848 recombinase A; Provisional; Region: recA; PRK09354 167879010849 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 167879010850 hexamer interface [polypeptide binding]; other site 167879010851 Walker A motif; other site 167879010852 ATP binding site [chemical binding]; other site 167879010853 Walker B motif; other site 167879010854 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 167879010855 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879010856 The C-terminal substrate binding domain of LysR-type transcriptional regulator, ArgP (IciA), for arginine exporter (ArgO); contains the type 2 periplasmic binding fold; Region: PBP2_IciA_ArgP; cd08428 167879010857 putative dimerization interface [polypeptide binding]; other site 167879010858 Lysine efflux permease [General function prediction only]; Region: COG1279 167879010859 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 167879010860 MutS domain I; Region: MutS_I; pfam01624 167879010861 MutS domain II; Region: MutS_II; pfam05188 167879010862 MutS domain III; Region: MutS_III; pfam05192 167879010863 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 167879010864 Walker A/P-loop; other site 167879010865 ATP binding site [chemical binding]; other site 167879010866 Q-loop/lid; other site 167879010867 ABC transporter signature motif; other site 167879010868 Walker B; other site 167879010869 D-loop; other site 167879010870 H-loop/switch region; other site 167879010871 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 167879010872 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 167879010873 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 167879010874 Sulfate transporter family; Region: Sulfate_transp; pfam00916 167879010875 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 167879010876 Transcriptional regulators [Transcription]; Region: GntR; COG1802 167879010877 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 167879010878 DNA-binding site [nucleotide binding]; DNA binding site 167879010879 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 167879010880 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 167879010881 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 167879010882 HD domain; Region: HD_3; cl17350 167879010883 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 167879010884 hypothetical protein; Provisional; Region: PRK11702 167879010885 adenine DNA glycosylase; Provisional; Region: PRK10880 167879010886 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 167879010887 minor groove reading motif; other site 167879010888 helix-hairpin-helix signature motif; other site 167879010889 substrate binding pocket [chemical binding]; other site 167879010890 active site 167879010891 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 167879010892 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 167879010893 DNA binding and oxoG recognition site [nucleotide binding] 167879010894 oxidative damage protection protein; Provisional; Region: PRK05408 167879010895 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 167879010896 short chain dehydrogenase; Validated; Region: PRK06182 167879010897 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 167879010898 NADP binding site [chemical binding]; other site 167879010899 active site 167879010900 steroid binding site; other site 167879010901 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 167879010902 short chain dehydrogenase; Validated; Region: PRK06182 167879010903 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 167879010904 NADP binding site [chemical binding]; other site 167879010905 active site 167879010906 steroid binding site; other site 167879010907 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits of...; Region: NorE_like; cd02862 167879010908 Subunit I/III interface [polypeptide binding]; other site 167879010909 Transcriptional regulator [Transcription]; Region: LysR; COG0583 167879010910 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879010911 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 167879010912 dimerization interface [polypeptide binding]; other site 167879010913 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 167879010914 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 167879010915 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 167879010916 HlyD family secretion protein; Region: HlyD_3; pfam13437 167879010917 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 167879010918 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 167879010919 active site 167879010920 phosphorylation site [posttranslational modification] 167879010921 intermolecular recognition site; other site 167879010922 dimerization interface [polypeptide binding]; other site 167879010923 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 167879010924 Zn2+ binding site [ion binding]; other site 167879010925 Mg2+ binding site [ion binding]; other site 167879010926 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 167879010927 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 167879010928 substrate binding pocket [chemical binding]; other site 167879010929 membrane-bound complex binding site; other site 167879010930 hinge residues; other site 167879010931 PAS domain S-box; Region: sensory_box; TIGR00229 167879010932 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; cd00130 167879010933 putative active site [active] 167879010934 heme pocket [chemical binding]; other site 167879010935 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 167879010936 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; cd00130 167879010937 putative active site [active] 167879010938 heme pocket [chemical binding]; other site 167879010939 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 167879010940 dimer interface [polypeptide binding]; other site 167879010941 phosphorylation site [posttranslational modification] 167879010942 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 167879010943 ATP binding site [chemical binding]; other site 167879010944 Mg2+ binding site [ion binding]; other site 167879010945 G-X-G motif; other site 167879010946 Response regulator receiver domain; Region: Response_reg; pfam00072 167879010947 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 167879010948 active site 167879010949 phosphorylation site [posttranslational modification] 167879010950 intermolecular recognition site; other site 167879010951 dimerization interface [polypeptide binding]; other site 167879010952 Response regulator receiver domain; Region: Response_reg; pfam00072 167879010953 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 167879010954 active site 167879010955 phosphorylation site [posttranslational modification] 167879010956 intermolecular recognition site; other site 167879010957 dimerization interface [polypeptide binding]; other site 167879010958 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 167879010959 putative binding surface; other site 167879010960 active site 167879010961 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 167879010962 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 167879010963 active site 167879010964 phosphorylation site [posttranslational modification] 167879010965 intermolecular recognition site; other site 167879010966 dimerization interface [polypeptide binding]; other site 167879010967 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 167879010968 active site 167879010969 phosphorylation site [posttranslational modification] 167879010970 intermolecular recognition site; other site 167879010971 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 167879010972 dimerization interface [polypeptide binding]; other site 167879010973 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 167879010974 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 167879010975 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 167879010976 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 167879010977 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 167879010978 substrate binding pocket [chemical binding]; other site 167879010979 membrane-bound complex binding site; other site 167879010980 hinge residues; other site 167879010981 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 167879010982 hypothetical protein; Provisional; Region: PRK12378 167879010983 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 167879010984 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 167879010985 CAP-like domain; other site 167879010986 active site 167879010987 primary dimer interface [polypeptide binding]; other site 167879010988 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879010989 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879010990 metal binding site [ion binding]; metal-binding site 167879010991 active site 167879010992 I-site; other site 167879010993 Tetratricopeptide repeat; Region: TPR_12; pfam13424 167879010994 Tetratricopeptide repeat; Region: TPR_12; pfam13424 167879010995 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879010996 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879010997 metal binding site [ion binding]; metal-binding site 167879010998 active site 167879010999 I-site; other site 167879011000 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 167879011001 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 167879011002 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 167879011003 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 167879011004 ATP binding site [chemical binding]; other site 167879011005 Mg2+ binding site [ion binding]; other site 167879011006 G-X-G motif; other site 167879011007 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 167879011008 anchoring element; other site 167879011009 dimer interface [polypeptide binding]; other site 167879011010 ATP binding site [chemical binding]; other site 167879011011 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 167879011012 active site 167879011013 metal binding site [ion binding]; metal-binding site 167879011014 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 167879011015 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 167879011016 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 167879011017 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 167879011018 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 167879011019 active site 167879011020 metal binding site [ion binding]; metal-binding site 167879011021 hexamer interface [polypeptide binding]; other site 167879011022 Protein of unknown function (DUF1249); Region: DUF1249; pfam06853 167879011023 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 167879011024 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 167879011025 dimer interface [polypeptide binding]; other site 167879011026 ADP-ribose binding site [chemical binding]; other site 167879011027 active site 167879011028 nudix motif; other site 167879011029 metal binding site [ion binding]; metal-binding site 167879011030 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 167879011031 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 167879011032 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 167879011033 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 167879011034 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 167879011035 putative acyl-acceptor binding pocket; other site 167879011036 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 167879011037 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 167879011038 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 167879011039 metal binding triad; other site 167879011040 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 167879011041 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 167879011042 metal binding triad; other site 167879011043 spermidine synthase; Provisional; Region: PRK03612 167879011044 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 167879011045 Uncharacterized protein conserved in bacteria (DUF2170); Region: DUF2170; pfam09938 167879011046 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 167879011047 L,D-transpeptidase; Provisional; Region: PRK10190 167879011048 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 167879011049 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 167879011050 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 167879011051 putative active site [active] 167879011052 putative metal binding residues [ion binding]; other site 167879011053 signature motif; other site 167879011054 putative triphosphate binding site [ion binding]; other site 167879011055 Bacterial SH3 domain homologues; Region: SH3b; smart00287 167879011056 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 167879011057 Alpha-1,2-fucosyltransferase; Region: Fut1_Fut2_like; cd11301 167879011058 Glycosyl transferase family 11; Region: Glyco_transf_11; pfam01531 167879011059 GDP-Fucose binding site [chemical binding]; other site 167879011060 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 167879011061 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 167879011062 NADP-binding site; other site 167879011063 homotetramer interface [polypeptide binding]; other site 167879011064 substrate binding site [chemical binding]; other site 167879011065 homodimer interface [polypeptide binding]; other site 167879011066 active site 167879011067 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 167879011068 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 167879011069 NADP binding site [chemical binding]; other site 167879011070 active site 167879011071 putative substrate binding site [chemical binding]; other site 167879011072 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 167879011073 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 167879011074 inhibitor-cofactor binding pocket; inhibition site 167879011075 pyridoxal 5'-phosphate binding site [chemical binding]; other site 167879011076 catalytic residue [active] 167879011077 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 167879011078 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 167879011079 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 167879011080 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 167879011081 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 167879011082 active site 167879011083 nucleotide binding site [chemical binding]; other site 167879011084 HIGH motif; other site 167879011085 KMSKS motif; other site 167879011086 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 167879011087 2-isopropylmalate synthase; Validated; Region: PRK00915 167879011088 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 167879011089 active site 167879011090 catalytic residues [active] 167879011091 metal binding site [ion binding]; metal-binding site 167879011092 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 167879011093 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 167879011094 tartrate dehydrogenase; Region: TTC; TIGR02089 167879011095 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 167879011096 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 167879011097 substrate binding site [chemical binding]; other site 167879011098 ligand binding site [chemical binding]; other site 167879011099 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 167879011100 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 167879011101 substrate binding site [chemical binding]; other site 167879011102 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 167879011103 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 167879011104 Walker A motif; other site 167879011105 ATP binding site [chemical binding]; other site 167879011106 Walker B motif; other site 167879011107 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 167879011108 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 167879011109 N-terminal plug; other site 167879011110 ligand-binding site [chemical binding]; other site 167879011111 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 167879011112 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 167879011113 active site 167879011114 NTP binding site [chemical binding]; other site 167879011115 metal binding triad [ion binding]; metal-binding site 167879011116 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 167879011117 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 167879011118 Zn2+ binding site [ion binding]; other site 167879011119 Mg2+ binding site [ion binding]; other site 167879011120 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 167879011121 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 167879011122 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 167879011123 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 167879011124 Ethylbenzene dehydrogenase; Region: EB_dh; smart00887 167879011125 Ethylbenzene dehydrogenase; Region: EB_dh; pfam09459 167879011126 putative ligand binding site [chemical binding]; other site 167879011127 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 167879011128 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 167879011129 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 167879011130 Hemerythrin; Region: Hemerythrin; cd12107 167879011131 Fe binding site [ion binding]; other site 167879011132 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 167879011133 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 167879011134 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 167879011135 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 167879011136 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 167879011137 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 167879011138 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 167879011139 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 167879011140 heme d1 biosynthesis radical SAM protein NirJ; Region: rSAM_NirJ; TIGR04051 167879011141 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 167879011142 FeS/SAM binding site; other site 167879011143 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 167879011144 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 167879011145 active site 167879011146 SAM binding site [chemical binding]; other site 167879011147 homodimer interface [polypeptide binding]; other site 167879011148 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 167879011149 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 167879011150 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 167879011151 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 167879011152 Coatomer WD associated region; Region: Coatomer_WDAD; pfam04053 167879011153 1,4-dihydroxy-2-naphthoate octaprenyltransferase [Coenzyme metabolism]; Region: MenA; cl17224 167879011154 UbiA prenyltransferase family; Region: UbiA; pfam01040 167879011155 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 167879011156 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 167879011157 EamA-like transporter family; Region: EamA; pfam00892 167879011158 EamA-like transporter family; Region: EamA; cl17759 167879011159 Hemerythrin; Region: Hemerythrin; cd12107 167879011160 Fe binding site [ion binding]; other site 167879011161 DEAD-like helicases superfamily; Region: DEXDc; smart00487 167879011162 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 167879011163 ATP binding site [chemical binding]; other site 167879011164 putative Mg++ binding site [ion binding]; other site 167879011165 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 167879011166 nucleotide binding region [chemical binding]; other site 167879011167 ATP-binding site [chemical binding]; other site 167879011168 Uncharacterized conserved protein [Function unknown]; Region: COG0397 167879011169 hypothetical protein; Validated; Region: PRK00029 167879011170 GST_N family, Metaxin subfamily, Metaxin-like proteins; a heterogenous group of proteins, predominantly uncharacterized, with similarity to metaxins and GSTs. Metaxin 1 is a component of a preprotein import complex of the mitochondrial outer membrane. It...; Region: GST_N_Metaxin_like; cd03080 167879011171 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 167879011172 putative C-terminal domain interface [polypeptide binding]; other site 167879011173 putative GSH binding site [chemical binding]; other site 167879011174 putative dimer interface [polypeptide binding]; other site 167879011175 C-terminal, alpha helical domain of Metaxin and related proteins; Region: GST_C_Metaxin; cd03193 167879011176 putative N-terminal domain interface [polypeptide binding]; other site 167879011177 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 167879011178 homotrimer interaction site [polypeptide binding]; other site 167879011179 putative active site [active] 167879011180 GMP synthase; Reviewed; Region: guaA; PRK00074 167879011181 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 167879011182 AMP/PPi binding site [chemical binding]; other site 167879011183 candidate oxyanion hole; other site 167879011184 catalytic triad [active] 167879011185 potential glutamine specificity residues [chemical binding]; other site 167879011186 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 167879011187 ATP Binding subdomain [chemical binding]; other site 167879011188 Ligand Binding sites [chemical binding]; other site 167879011189 Dimerization subdomain; other site 167879011190 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 167879011191 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 167879011192 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 167879011193 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 167879011194 active site 167879011195 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 167879011196 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 167879011197 generic binding surface II; other site 167879011198 generic binding surface I; other site 167879011199 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879011200 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879011201 metal binding site [ion binding]; metal-binding site 167879011202 active site 167879011203 I-site; other site 167879011204 Flagellar protein YcgR; Region: YcgR_2; pfam12945 167879011205 PilZ domain; Region: PilZ; pfam07238 167879011206 GTP-binding protein Der; Reviewed; Region: PRK00093 167879011207 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 167879011208 G1 box; other site 167879011209 GTP/Mg2+ binding site [chemical binding]; other site 167879011210 Switch I region; other site 167879011211 G2 box; other site 167879011212 Switch II region; other site 167879011213 G3 box; other site 167879011214 G4 box; other site 167879011215 G5 box; other site 167879011216 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 167879011217 G1 box; other site 167879011218 GTP/Mg2+ binding site [chemical binding]; other site 167879011219 Switch I region; other site 167879011220 G2 box; other site 167879011221 G3 box; other site 167879011222 Switch II region; other site 167879011223 G4 box; other site 167879011224 G5 box; other site 167879011225 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 167879011226 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 167879011227 Trp docking motif [polypeptide binding]; other site 167879011228 active site 167879011229 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 167879011230 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 167879011231 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 167879011232 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 167879011233 dimer interface [polypeptide binding]; other site 167879011234 motif 1; other site 167879011235 active site 167879011236 motif 2; other site 167879011237 motif 3; other site 167879011238 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 167879011239 anticodon binding site; other site 167879011240 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 167879011241 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 167879011242 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 167879011243 cytoskeletal protein RodZ; Provisional; Region: PRK10856 167879011244 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 167879011245 non-specific DNA binding site [nucleotide binding]; other site 167879011246 salt bridge; other site 167879011247 sequence-specific DNA binding site [nucleotide binding]; other site 167879011248 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 167879011249 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 167879011250 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 167879011251 TPR motif; other site 167879011252 binding surface 167879011253 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 167879011254 binding surface 167879011255 TPR motif; other site 167879011256 Sfi1 spindle body protein; Region: Sfi1; pfam08457 167879011257 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 167879011258 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 167879011259 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 167879011260 FeS/SAM binding site; other site 167879011261 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 167879011262 active site 167879011263 multimer interface [polypeptide binding]; other site 167879011264 acyl-CoA synthetase; Validated; Region: PRK08162 167879011265 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 167879011266 acyl-activating enzyme (AAE) consensus motif; other site 167879011267 putative active site [active] 167879011268 AMP binding site [chemical binding]; other site 167879011269 putative CoA binding site [chemical binding]; other site 167879011270 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 167879011271 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 167879011272 dimerization interface [polypeptide binding]; other site 167879011273 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 167879011274 ATP binding site [chemical binding]; other site 167879011275 Mg2+ binding site [ion binding]; other site 167879011276 G-X-G motif; other site 167879011277 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 167879011278 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 167879011279 active site 167879011280 phosphorylation site [posttranslational modification] 167879011281 intermolecular recognition site; other site 167879011282 dimerization interface [polypeptide binding]; other site 167879011283 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 167879011284 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 167879011285 active site 167879011286 phosphorylation site [posttranslational modification] 167879011287 intermolecular recognition site; other site 167879011288 dimerization interface [polypeptide binding]; other site 167879011289 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 167879011290 DNA binding site [nucleotide binding] 167879011291 malate dehydrogenase; Provisional; Region: PRK13529 167879011292 Malic enzyme, N-terminal domain; Region: malic; pfam00390 167879011293 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 167879011294 NAD(P) binding site [chemical binding]; other site 167879011295 FeS assembly protein IscX; Region: iscX_yfhJ; TIGR03412 167879011296 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 167879011297 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 167879011298 putative DNA binding site [nucleotide binding]; other site 167879011299 putative Zn2+ binding site [ion binding]; other site 167879011300 AsnC family; Region: AsnC_trans_reg; pfam01037 167879011301 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 167879011302 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 167879011303 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 167879011304 active site 167879011305 Zn binding site [ion binding]; other site 167879011306 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 167879011307 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 167879011308 dimerization interface [polypeptide binding]; other site 167879011309 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 167879011310 dimer interface [polypeptide binding]; other site 167879011311 phosphorylation site [posttranslational modification] 167879011312 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 167879011313 ATP binding site [chemical binding]; other site 167879011314 Mg2+ binding site [ion binding]; other site 167879011315 G-X-G motif; other site 167879011316 response regulator GlrR; Provisional; Region: PRK15115 167879011317 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 167879011318 active site 167879011319 phosphorylation site [posttranslational modification] 167879011320 intermolecular recognition site; other site 167879011321 dimerization interface [polypeptide binding]; other site 167879011322 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 167879011323 Walker A motif; other site 167879011324 ATP binding site [chemical binding]; other site 167879011325 Walker B motif; other site 167879011326 arginine finger; other site 167879011327 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 167879011328 binding surface 167879011329 Tetratricopeptide repeat; Region: TPR_16; pfam13432 167879011330 TPR motif; other site 167879011331 TPR repeat; Region: TPR_11; pfam13414 167879011332 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 167879011333 TPR motif; other site 167879011334 binding surface 167879011335 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 167879011336 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 167879011337 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 167879011338 N-terminal plug; other site 167879011339 ligand-binding site [chemical binding]; other site 167879011340 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 167879011341 Sel1-like repeats; Region: SEL1; smart00671 167879011342 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 167879011343 putative hydrolase; Provisional; Region: PRK11460 167879011344 Transcriptional regulator [Transcription]; Region: LysR; COG0583 167879011345 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879011346 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 167879011347 dimerization interface [polypeptide binding]; other site 167879011348 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 167879011349 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 167879011350 catalytic residues [active] 167879011351 NnrS protein; Region: NnrS; pfam05940 167879011352 glycerate dehydrogenase; Provisional; Region: PRK06487 167879011353 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 167879011354 putative ligand binding site [chemical binding]; other site 167879011355 putative NAD binding site [chemical binding]; other site 167879011356 catalytic site [active] 167879011357 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 167879011358 Coenzyme A binding pocket [chemical binding]; other site 167879011359 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 167879011360 ligand binding site [chemical binding]; other site 167879011361 active site 167879011362 UGI interface [polypeptide binding]; other site 167879011363 catalytic site [active] 167879011364 threonine synthase; Validated; Region: PRK09225 167879011365 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 167879011366 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 167879011367 catalytic residue [active] 167879011368 homoserine kinase; Provisional; Region: PRK01212 167879011369 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 167879011370 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 167879011371 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 167879011372 putative catalytic residues [active] 167879011373 putative nucleotide binding site [chemical binding]; other site 167879011374 putative aspartate binding site [chemical binding]; other site 167879011375 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 167879011376 dimer interface [polypeptide binding]; other site 167879011377 putative threonine allosteric regulatory site; other site 167879011378 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 167879011379 putative threonine allosteric regulatory site; other site 167879011380 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 167879011381 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 167879011382 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879011383 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879011384 metal binding site [ion binding]; metal-binding site 167879011385 active site 167879011386 I-site; other site 167879011387 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 167879011388 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 167879011389 Response regulator receiver domain; Region: Response_reg; pfam00072 167879011390 active site 167879011391 phosphorylation site [posttranslational modification] 167879011392 intermolecular recognition site; other site 167879011393 dimerization interface [polypeptide binding]; other site 167879011394 Protein of unknown function DUF45; Region: DUF45; pfam01863 167879011395 YebG protein; Region: YebG; pfam07130 167879011396 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 167879011397 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 167879011398 Transglycosylase; Region: Transgly; pfam00912 167879011399 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 167879011400 ATP-dependent RNA helicase HrpB; Provisional; Region: PRK11664 167879011401 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 167879011402 ATP binding site [chemical binding]; other site 167879011403 putative Mg++ binding site [ion binding]; other site 167879011404 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 167879011405 nucleotide binding region [chemical binding]; other site 167879011406 ATP-binding site [chemical binding]; other site 167879011407 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 167879011408 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 167879011409 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 167879011410 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 167879011411 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 167879011412 active site 167879011413 HIGH motif; other site 167879011414 nucleotide binding site [chemical binding]; other site 167879011415 C factor cell-cell signaling protein; Provisional; Region: PRK09009 167879011416 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 167879011417 NADP binding site [chemical binding]; other site 167879011418 homodimer interface [polypeptide binding]; other site 167879011419 active site 167879011420 poly(A) polymerase; Region: pcnB; TIGR01942 167879011421 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 167879011422 active site 167879011423 NTP binding site [chemical binding]; other site 167879011424 metal binding triad [ion binding]; metal-binding site 167879011425 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 167879011426 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 167879011427 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 167879011428 catalytic center binding site [active] 167879011429 ATP binding site [chemical binding]; other site 167879011430 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 167879011431 oligomerization interface [polypeptide binding]; other site 167879011432 active site 167879011433 metal binding site [ion binding]; metal-binding site 167879011434 pantoate--beta-alanine ligase; Region: panC; TIGR00018 167879011435 Pantoate-beta-alanine ligase; Region: PanC; cd00560 167879011436 active site 167879011437 ATP-binding site [chemical binding]; other site 167879011438 pantoate-binding site; other site 167879011439 HXXH motif; other site 167879011440 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 167879011441 Coenzyme A binding pocket [chemical binding]; other site 167879011442 Urea transporter; Region: UT; pfam03253 167879011443 Protein of unknown function (DUF2872); Region: DUF2872; pfam11071 167879011444 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 167879011445 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 167879011446 active site 167879011447 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 167879011448 S-adenosylmethionine binding site [chemical binding]; other site 167879011449 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 167879011450 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 167879011451 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 167879011452 putative metal binding site [ion binding]; other site 167879011453 putative homodimer interface [polypeptide binding]; other site 167879011454 putative homotetramer interface [polypeptide binding]; other site 167879011455 putative homodimer-homodimer interface [polypeptide binding]; other site 167879011456 putative allosteric switch controlling residues; other site 167879011457 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 167879011458 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 167879011459 HlyD family secretion protein; Region: HlyD_3; pfam13437 167879011460 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 167879011461 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 167879011462 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 167879011463 Walker A/P-loop; other site 167879011464 ATP binding site [chemical binding]; other site 167879011465 Q-loop/lid; other site 167879011466 ABC transporter signature motif; other site 167879011467 Walker B; other site 167879011468 D-loop; other site 167879011469 H-loop/switch region; other site 167879011470 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 167879011471 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 167879011472 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 167879011473 binding surface 167879011474 TPR motif; other site 167879011475 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 167879011476 binding surface 167879011477 TPR motif; other site 167879011478 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 167879011479 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 167879011480 TPR motif; other site 167879011481 Tetratricopeptide repeat; Region: TPR_16; pfam13432 167879011482 binding surface 167879011483 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 167879011484 Ca2+ binding site [ion binding]; other site 167879011485 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 167879011486 Ca2+ binding site [ion binding]; other site 167879011487 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 167879011488 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 167879011489 Ca2+ binding site [ion binding]; other site 167879011490 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 167879011491 Ca2+ binding site [ion binding]; other site 167879011492 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 167879011493 Ca2+ binding site [ion binding]; other site 167879011494 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 167879011495 Ca2+ binding site [ion binding]; other site 167879011496 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 167879011497 Ca2+ binding site [ion binding]; other site 167879011498 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 167879011499 Ca2+ binding site [ion binding]; other site 167879011500 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 167879011501 Ca2+ binding site [ion binding]; other site 167879011502 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 167879011503 Ca2+ binding site [ion binding]; other site 167879011504 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 167879011505 Ca2+ binding site [ion binding]; other site 167879011506 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 167879011507 Ca2+ binding site [ion binding]; other site 167879011508 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 167879011509 Ca2+ binding site [ion binding]; other site 167879011510 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 167879011511 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 167879011512 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 167879011513 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 167879011514 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 167879011515 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 167879011516 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 167879011517 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 167879011518 DNA binding residues [nucleotide binding] 167879011519 DNA primase; Validated; Region: dnaG; PRK05667 167879011520 CHC2 zinc finger; Region: zf-CHC2; pfam01807 167879011521 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 167879011522 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 167879011523 active site 167879011524 metal binding site [ion binding]; metal-binding site 167879011525 interdomain interaction site; other site 167879011526 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 167879011527 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 167879011528 Yqey-like protein; Region: YqeY; pfam09424 167879011529 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 167879011530 UGMP family protein; Validated; Region: PRK09604 167879011531 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 167879011532 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 167879011533 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 167879011534 homooctamer interface [polypeptide binding]; other site 167879011535 active site 167879011536 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 167879011537 catalytic center binding site [active] 167879011538 ATP binding site [chemical binding]; other site 167879011539 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 167879011540 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 167879011541 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 167879011542 Predicted ATPase [General function prediction only]; Region: COG1485 167879011543 Protein of unknown function (DUF1043); Region: DUF1043; cl11473 167879011544 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 167879011545 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 167879011546 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 167879011547 protein binding site [polypeptide binding]; other site 167879011548 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 167879011549 periplasmic serine pepetdase DegS; Region: protease_degS; TIGR02038 167879011550 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 167879011551 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 167879011552 protein binding site [polypeptide binding]; other site 167879011553 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 167879011554 catalytic residues [active] 167879011555 hinge region; other site 167879011556 alpha helical domain; other site 167879011557 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 167879011558 serine/threonine protein kinase; Provisional; Region: PRK11768 167879011559 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 167879011560 4Fe-4S binding domain; Region: Fer4_5; pfam12801 167879011561 4Fe-4S binding domain; Region: Fer4; pfam00037 167879011562 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 167879011563 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 167879011564 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 167879011565 active site 167879011566 N-formylglutamate amidohydrolase; Region: FGase; cl01522 167879011567 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 167879011568 catalytic triad [active] 167879011569 dimer interface [polypeptide binding]; other site 167879011570 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 167879011571 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 167879011572 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 167879011573 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 167879011574 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 167879011575 putative active site [active] 167879011576 putative substrate binding site [chemical binding]; other site 167879011577 putative cosubstrate binding site; other site 167879011578 catalytic site [active] 167879011579 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 167879011580 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 167879011581 Zn binding site [ion binding]; other site 167879011582 Transcriptional regulator [Transcription]; Region: LysR; COG0583 167879011583 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879011584 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 167879011585 dimerization interface [polypeptide binding]; other site 167879011586 Uncharacterized conserved protein [Function unknown]; Region: COG0432 167879011587 replicative DNA helicase; Provisional; Region: PRK08006 167879011588 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 167879011589 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 167879011590 Walker A motif; other site 167879011591 ATP binding site [chemical binding]; other site 167879011592 Walker B motif; other site 167879011593 DNA binding loops [nucleotide binding] 167879011594 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 167879011595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 167879011596 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 167879011597 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 167879011598 DNA binding residues [nucleotide binding] 167879011599 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 167879011600 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 167879011601 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 167879011602 ATP binding site [chemical binding]; other site 167879011603 putative Mg++ binding site [ion binding]; other site 167879011604 helicase superfamily c-terminal domain; Region: HELICc; smart00490 167879011605 Sporulation related domain; Region: SPOR; pfam05036 167879011606 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 167879011607 active site 167879011608 HslU subunit interaction site [polypeptide binding]; other site 167879011609 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 167879011610 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 167879011611 Walker A motif; other site 167879011612 ATP binding site [chemical binding]; other site 167879011613 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 167879011614 Walker B motif; other site 167879011615 arginine finger; other site 167879011616 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 167879011617 Protein of unknown function (DUF971); Region: DUF971; pfam06155 167879011618 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 167879011619 dimerization interface [polypeptide binding]; other site 167879011620 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 167879011621 dimer interface [polypeptide binding]; other site 167879011622 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 167879011623 putative CheW interface [polypeptide binding]; other site 167879011624 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879011625 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879011626 metal binding site [ion binding]; metal-binding site 167879011627 active site 167879011628 I-site; other site 167879011629 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 167879011630 regulator of ribonuclease activity A; Region: RraA_entero; TIGR02998 167879011631 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879011632 active site 167879011633 I-site; other site 167879011634 metal binding site [ion binding]; metal-binding site 167879011635 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 167879011636 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 167879011637 binding surface 167879011638 TPR motif; other site 167879011639 Tetratricopeptide repeat; Region: TPR_12; pfam13424 167879011640 Tetratricopeptide repeat; Region: TPR_12; pfam13424 167879011641 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 167879011642 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 167879011643 catalytic site [active] 167879011644 putative active site [active] 167879011645 putative substrate binding site [chemical binding]; other site 167879011646 dimer interface [polypeptide binding]; other site 167879011647 GTPase RsgA; Reviewed; Region: PRK12288 167879011648 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 167879011649 RNA binding site [nucleotide binding]; other site 167879011650 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 167879011651 GTPase/Zn-binding domain interface [polypeptide binding]; other site 167879011652 GTP/Mg2+ binding site [chemical binding]; other site 167879011653 G4 box; other site 167879011654 G5 box; other site 167879011655 G1 box; other site 167879011656 Switch I region; other site 167879011657 G2 box; other site 167879011658 G3 box; other site 167879011659 Switch II region; other site 167879011660 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 167879011661 Penicillinase repressor; Region: Pencillinase_R; pfam03965 167879011662 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 167879011663 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 167879011664 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 167879011665 lysophospholipase L2; Provisional; Region: PRK10749 167879011666 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 167879011667 Cation efflux family; Region: Cation_efflux; cl00316 167879011668 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 167879011669 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 167879011670 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 167879011671 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 167879011672 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 167879011673 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cd00557 167879011674 SecA binding site; other site 167879011675 Preprotein binding site; other site 167879011676 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 167879011677 GSH binding site [chemical binding]; other site 167879011678 catalytic residues [active] 167879011679 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 167879011680 active site residue [active] 167879011681 phosphoglyceromutase; Provisional; Region: PRK05434 167879011682 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 167879011683 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 167879011684 Peptidase family M23; Region: Peptidase_M23; pfam01551 167879011685 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 167879011686 NodB motif; other site 167879011687 putative active site [active] 167879011688 putative catalytic site [active] 167879011689 Zn binding site [ion binding]; other site 167879011690 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 167879011691 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 167879011692 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 167879011693 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 167879011694 N-acyl amino acid synthase, PEP-CTERM/exosortase system-associated; Region: exosort_acyl; TIGR03694 167879011695 FAD binding domain; Region: FAD_binding_4; pfam01565 167879011696 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 167879011697 HDOD domain; Region: HDOD; pfam08668 167879011698 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 167879011699 hypothetical protein; Provisional; Region: PRK09256 167879011700 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 167879011701 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 167879011702 GIY-YIG motif/motif A; other site 167879011703 putative active site [active] 167879011704 putative metal binding site [ion binding]; other site 167879011705 Protein of unknown function (DUF3581); Region: DUF3581; pfam12119 167879011706 DNA ligase; Provisional; Region: PRK09125 167879011707 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 167879011708 DNA binding site [nucleotide binding] 167879011709 active site 167879011710 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of kDNA ligase-like ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_kDNA_ligase_like; cd08041 167879011711 DNA binding site [nucleotide binding] 167879011712 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 167879011713 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 167879011714 S-adenosylmethionine binding site [chemical binding]; other site 167879011715 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 167879011716 Na2 binding site [ion binding]; other site 167879011717 putative substrate binding site 1 [chemical binding]; other site 167879011718 Na binding site 1 [ion binding]; other site 167879011719 putative substrate binding site 2 [chemical binding]; other site 167879011720 HDOD domain; Region: HDOD; pfam08668 167879011721 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 167879011722 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 167879011723 putative DNA binding site [nucleotide binding]; other site 167879011724 putative Zn2+ binding site [ion binding]; other site 167879011725 AsnC family; Region: AsnC_trans_reg; pfam01037 167879011726 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 167879011727 Proline dehydrogenase; Region: Pro_dh; pfam01619 167879011728 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 167879011729 Glutamate binding site [chemical binding]; other site 167879011730 NAD binding site [chemical binding]; other site 167879011731 catalytic residues [active] 167879011732 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 167879011733 NAD(P) binding site [chemical binding]; other site 167879011734 GAF domain; Region: GAF; pfam01590 167879011735 GAF domain; Region: GAF_2; pfam13185 167879011736 GAF domain; Region: GAF_2; pfam13185 167879011737 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 167879011738 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879011739 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879011740 metal binding site [ion binding]; metal-binding site 167879011741 active site 167879011742 I-site; other site 167879011743 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 167879011744 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 167879011745 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 167879011746 active site 167879011747 uracil binding [chemical binding]; other site 167879011748 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 167879011749 HlyD family secretion protein; Region: HlyD_3; pfam13437 167879011750 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 167879011751 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 167879011752 Walker A/P-loop; other site 167879011753 ATP binding site [chemical binding]; other site 167879011754 Q-loop/lid; other site 167879011755 ABC transporter signature motif; other site 167879011756 Walker B; other site 167879011757 D-loop; other site 167879011758 H-loop/switch region; other site 167879011759 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 167879011760 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 167879011761 FtsX-like permease family; Region: FtsX; pfam02687 167879011762 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 167879011763 FtsX-like permease family; Region: FtsX; pfam02687 167879011764 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 167879011765 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 167879011766 active site 167879011767 phosphorylation site [posttranslational modification] 167879011768 intermolecular recognition site; other site 167879011769 dimerization interface [polypeptide binding]; other site 167879011770 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 167879011771 Walker A motif; other site 167879011772 ATP binding site [chemical binding]; other site 167879011773 Walker B motif; other site 167879011774 arginine finger; other site 167879011775 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 167879011776 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 167879011777 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 167879011778 dimer interface [polypeptide binding]; other site 167879011779 phosphorylation site [posttranslational modification] 167879011780 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 167879011781 ATP binding site [chemical binding]; other site 167879011782 Mg2+ binding site [ion binding]; other site 167879011783 G-X-G motif; other site 167879011784 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 167879011785 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 167879011786 N-terminal plug; other site 167879011787 ligand-binding site [chemical binding]; other site 167879011788 Sulfatase; Region: Sulfatase; cl17466 167879011789 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 167879011790 putative active site [active] 167879011791 putative metal binding site [ion binding]; other site 167879011792 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 167879011793 Histone acetyltransferase HPA2 and related acetyltransferases [Transcription / General function prediction only]; Region: WecD; COG0454 167879011794 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 167879011795 Coenzyme A binding pocket [chemical binding]; other site 167879011796 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 167879011797 Phage Tail Collar Domain; Region: Collar; pfam07484 167879011798 PEP-CTERM protein-sorting domain; Region: PEP_exosort; TIGR02595 167879011799 HEAT repeats; Region: HEAT_2; pfam13646 167879011800 Aspartyl/Asparaginyl beta-hydroxylase; Region: Asp_Arg_Hydrox; cl17820 167879011801 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 167879011802 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 167879011803 putative SAM binding site [chemical binding]; other site 167879011804 putative homodimer interface [polypeptide binding]; other site 167879011805 LppC putative lipoprotein; Region: LppC; pfam04348 167879011806 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 167879011807 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 167879011808 putative ligand binding site [chemical binding]; other site 167879011809 hypothetical protein; Reviewed; Region: PRK12497 167879011810 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 167879011811 dimer interface [polypeptide binding]; other site 167879011812 active site 167879011813 outer membrane lipoprotein; Provisional; Region: PRK11023 167879011814 BON domain; Region: BON; pfam04972 167879011815 BON domain; Region: BON; pfam04972 167879011816 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 167879011817 stringent starvation protein A; Provisional; Region: sspA; PRK09481 167879011818 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 167879011819 C-terminal domain interface [polypeptide binding]; other site 167879011820 putative GSH binding site (G-site) [chemical binding]; other site 167879011821 dimer interface [polypeptide binding]; other site 167879011822 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 167879011823 dimer interface [polypeptide binding]; other site 167879011824 N-terminal domain interface [polypeptide binding]; other site 167879011825 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 167879011826 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 167879011827 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 167879011828 Qi binding site; other site 167879011829 intrachain domain interface; other site 167879011830 interchain domain interface [polypeptide binding]; other site 167879011831 heme bH binding site [chemical binding]; other site 167879011832 heme bL binding site [chemical binding]; other site 167879011833 Qo binding site; other site 167879011834 interchain domain interface [polypeptide binding]; other site 167879011835 intrachain domain interface; other site 167879011836 Qi binding site; other site 167879011837 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 167879011838 Qo binding site; other site 167879011839 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 167879011840 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 167879011841 [2Fe-2S] cluster binding site [ion binding]; other site 167879011842 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 167879011843 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 167879011844 23S rRNA interface [nucleotide binding]; other site 167879011845 L3 interface [polypeptide binding]; other site 167879011846 putative major pilin subunit; Provisional; Region: PRK10574 167879011847 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 167879011848 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 167879011849 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 167879011850 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 167879011851 Walker A motif; other site 167879011852 ATP binding site [chemical binding]; other site 167879011853 Walker B motif; other site 167879011854 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 167879011855 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 167879011856 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 167879011857 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 167879011858 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 167879011859 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 167879011860 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 167879011861 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 167879011862 CoA-binding site [chemical binding]; other site 167879011863 hypothetical protein; Provisional; Region: PRK05287 167879011864 Domain of unknown function (DUF329); Region: DUF329; pfam03884 167879011865 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 167879011866 active site 167879011867 8-oxo-dGMP binding site [chemical binding]; other site 167879011868 nudix motif; other site 167879011869 metal binding site [ion binding]; metal-binding site 167879011870 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 167879011871 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 167879011872 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 167879011873 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 167879011874 nucleotide binding region [chemical binding]; other site 167879011875 ATP-binding site [chemical binding]; other site 167879011876 SEC-C motif; Region: SEC-C; pfam02810 167879011877 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 167879011878 Peptidase family M23; Region: Peptidase_M23; pfam01551 167879011879 Protein of unknown function (DUF721); Region: DUF721; cl02324 167879011880 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 167879011881 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 167879011882 cell division protein FtsZ; Validated; Region: PRK09330 167879011883 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 167879011884 nucleotide binding site [chemical binding]; other site 167879011885 SulA interaction site; other site 167879011886 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 167879011887 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 167879011888 nucleotide binding site [chemical binding]; other site 167879011889 Cell division protein FtsA; Region: FtsA; pfam14450 167879011890 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 167879011891 Cell division protein FtsQ; Region: FtsQ; pfam03799 167879011892 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 167879011893 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 167879011894 ATP-grasp domain; Region: ATP-grasp_4; cl17255 167879011895 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 167879011896 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 167879011897 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 167879011898 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 167879011899 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 167879011900 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 167879011901 active site 167879011902 homodimer interface [polypeptide binding]; other site 167879011903 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 167879011904 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 167879011905 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 167879011906 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 167879011907 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 167879011908 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 167879011909 Mg++ binding site [ion binding]; other site 167879011910 putative catalytic motif [active] 167879011911 putative substrate binding site [chemical binding]; other site 167879011912 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 167879011913 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 167879011914 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 167879011915 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 167879011916 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 167879011917 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 167879011918 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 167879011919 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 167879011920 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 167879011921 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 167879011922 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 167879011923 Cell division protein FtsL; Region: FtsL; pfam04999 167879011924 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 167879011925 MraW methylase family; Region: Methyltransf_5; pfam01795 167879011926 cell division protein MraZ; Reviewed; Region: PRK00326 167879011927 MraZ protein; Region: MraZ; pfam02381 167879011928 MraZ protein; Region: MraZ; pfam02381 167879011929 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 167879011930 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 167879011931 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 167879011932 active site 167879011933 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 167879011934 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 167879011935 TPR repeat; Region: TPR_11; pfam13414 167879011936 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 167879011937 binding surface 167879011938 TPR motif; other site 167879011939 Tetratricopeptide repeat; Region: TPR_12; pfam13424 167879011940 Tetratricopeptide repeat; Region: TPR_12; pfam13424 167879011941 Tetratricopeptide repeat; Region: TPR_12; pfam13424 167879011942 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 167879011943 dimer interface [polypeptide binding]; other site 167879011944 phosphorylation site [posttranslational modification] 167879011945 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 167879011946 ATP binding site [chemical binding]; other site 167879011947 Mg2+ binding site [ion binding]; other site 167879011948 G-X-G motif; other site 167879011949 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 167879011950 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 167879011951 active site 167879011952 phosphorylation site [posttranslational modification] 167879011953 intermolecular recognition site; other site 167879011954 dimerization interface [polypeptide binding]; other site 167879011955 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 167879011956 putative binding surface; other site 167879011957 active site 167879011958 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 167879011959 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 167879011960 Protein export membrane protein; Region: SecD_SecF; cl14618 167879011961 Protein export membrane protein; Region: SecD_SecF; cl14618 167879011962 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 167879011963 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 167879011964 HlyD family secretion protein; Region: HlyD_3; pfam13437 167879011965 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 167879011966 S1 domain; Region: S1_2; pfam13509 167879011967 S1 domain; Region: S1_2; pfam13509 167879011968 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 167879011969 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 167879011970 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 167879011971 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 167879011972 F plasmid transfer operon, TraF, protein; Region: TraF_2; pfam13729 167879011973 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 167879011974 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 167879011975 active site 167879011976 Zn binding site [ion binding]; other site 167879011977 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Ornithine and Diaminopimelate Decarboxylases, and Related Enzymes; Region: PLPDE_III_ODC_DapDC_like; cd06810 167879011978 active site 167879011979 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 167879011980 dimer interface [polypeptide binding]; other site 167879011981 catalytic residues [active] 167879011982 substrate binding site [chemical binding]; other site 167879011983 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 167879011984 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 167879011985 trimer interface [polypeptide binding]; other site 167879011986 active site 167879011987 substrate binding site [chemical binding]; other site 167879011988 CoA binding site [chemical binding]; other site 167879011989 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 167879011990 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 167879011991 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 167879011992 S-adenosylmethionine binding site [chemical binding]; other site 167879011993 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 167879011994 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 167879011995 dimer interface [polypeptide binding]; other site 167879011996 phosphorylation site [posttranslational modification] 167879011997 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 167879011998 ATP binding site [chemical binding]; other site 167879011999 G-X-G motif; other site 167879012000 two-component response regulator; Provisional; Region: PRK11173 167879012001 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 167879012002 active site 167879012003 phosphorylation site [posttranslational modification] 167879012004 intermolecular recognition site; other site 167879012005 dimerization interface [polypeptide binding]; other site 167879012006 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 167879012007 DNA binding site [nucleotide binding] 167879012008 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 167879012009 putative binding surface; other site 167879012010 active site 167879012011 putative GTP cyclohydrolase; Provisional; Region: PRK13674 167879012012 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 167879012013 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 167879012014 active site 167879012015 dimer interface [polypeptide binding]; other site 167879012016 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 167879012017 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 167879012018 active site 167879012019 FMN binding site [chemical binding]; other site 167879012020 substrate binding site [chemical binding]; other site 167879012021 3Fe-4S cluster binding site [ion binding]; other site 167879012022 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 167879012023 domain interface; other site 167879012024 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 167879012025 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 167879012026 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 167879012027 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 167879012028 folate binding site [chemical binding]; other site 167879012029 NADP+ binding site [chemical binding]; other site 167879012030 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 167879012031 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39C; cd02419 167879012032 putative active site [active] 167879012033 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 167879012034 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 167879012035 Walker A/P-loop; other site 167879012036 ATP binding site [chemical binding]; other site 167879012037 Q-loop/lid; other site 167879012038 ABC transporter signature motif; other site 167879012039 Walker B; other site 167879012040 D-loop; other site 167879012041 H-loop/switch region; other site 167879012042 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 167879012043 GTPase CgtA; Reviewed; Region: obgE; PRK12298 167879012044 GTP1/OBG; Region: GTP1_OBG; pfam01018 167879012045 Obg GTPase; Region: Obg; cd01898 167879012046 G1 box; other site 167879012047 GTP/Mg2+ binding site [chemical binding]; other site 167879012048 Switch I region; other site 167879012049 G2 box; other site 167879012050 G3 box; other site 167879012051 Switch II region; other site 167879012052 G4 box; other site 167879012053 G5 box; other site 167879012054 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 167879012055 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 167879012056 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 167879012057 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 167879012058 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 167879012059 substrate binding pocket [chemical binding]; other site 167879012060 chain length determination region; other site 167879012061 substrate-Mg2+ binding site; other site 167879012062 catalytic residues [active] 167879012063 aspartate-rich region 1; other site 167879012064 active site lid residues [active] 167879012065 aspartate-rich region 2; other site 167879012066 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 167879012067 malate dehydrogenase; Provisional; Region: PRK05086 167879012068 NAD binding site [chemical binding]; other site 167879012069 dimerization interface [polypeptide binding]; other site 167879012070 Substrate binding site [chemical binding]; other site 167879012071 arginine repressor; Provisional; Region: PRK05066 167879012072 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 167879012073 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 167879012074 Cache domain; Region: Cache_1; pfam02743 167879012075 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 167879012076 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 167879012077 dimer interface [polypeptide binding]; other site 167879012078 phosphorylation site [posttranslational modification] 167879012079 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 167879012080 ATP binding site [chemical binding]; other site 167879012081 Mg2+ binding site [ion binding]; other site 167879012082 G-X-G motif; other site 167879012083 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 167879012084 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 167879012085 active site 167879012086 phosphorylation site [posttranslational modification] 167879012087 intermolecular recognition site; other site 167879012088 dimerization interface [polypeptide binding]; other site 167879012089 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 167879012090 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 167879012091 putative active site [active] 167879012092 PhoH-like protein; Region: PhoH; pfam02562 167879012093 ATP-dependent helicase HepA; Validated; Region: PRK04914 167879012094 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 167879012095 ATP binding site [chemical binding]; other site 167879012096 putative Mg++ binding site [ion binding]; other site 167879012097 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 167879012098 nucleotide binding region [chemical binding]; other site 167879012099 ATP-binding site [chemical binding]; other site 167879012100 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 167879012101 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 167879012102 active site 167879012103 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 167879012104 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 167879012105 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 167879012106 putative metal binding site [ion binding]; other site 167879012107 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 167879012108 HSP70 interaction site [polypeptide binding]; other site 167879012109 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 167879012110 Organic solvent tolerance protein; Region: OstA_C; pfam04453 167879012111 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 167879012112 SurA N-terminal domain; Region: SurA_N; pfam09312 167879012113 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 167879012114 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 167879012115 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 167879012116 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 167879012117 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 167879012118 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 167879012119 S-adenosylmethionine binding site [chemical binding]; other site 167879012120 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 167879012121 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 167879012122 active site 167879012123 metal binding site [ion binding]; metal-binding site 167879012124 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 167879012125 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 167879012126 dimerization interface [polypeptide binding]; other site 167879012127 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 167879012128 dimer interface [polypeptide binding]; other site 167879012129 putative CheW interface [polypeptide binding]; other site 167879012130 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 167879012131 DNA-binding site [nucleotide binding]; DNA binding site 167879012132 RNA-binding motif; other site 167879012133 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 167879012134 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 167879012135 hinge; other site 167879012136 active site 167879012137 BolA-like protein; Region: BolA; cl00386 167879012138 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 167879012139 anti sigma factor interaction site; other site 167879012140 regulatory phosphorylation site [posttranslational modification]; other site 167879012141 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 167879012142 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 167879012143 mce related protein; Region: MCE; pfam02470 167879012144 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 167879012145 Permease; Region: Permease; cl00510 167879012146 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 167879012147 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 167879012148 Walker A/P-loop; other site 167879012149 ATP binding site [chemical binding]; other site 167879012150 Q-loop/lid; other site 167879012151 ABC transporter signature motif; other site 167879012152 Walker B; other site 167879012153 D-loop; other site 167879012154 H-loop/switch region; other site 167879012155 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 167879012156 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 167879012157 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 167879012158 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 167879012159 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 167879012160 putative active site [active] 167879012161 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 167879012162 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase; Provisional; Region: PRK09484 167879012163 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 167879012164 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 167879012165 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 167879012166 OstA-like protein; Region: OstA; cl00844 167879012167 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 167879012168 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 167879012169 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 167879012170 Walker A/P-loop; other site 167879012171 ATP binding site [chemical binding]; other site 167879012172 Q-loop/lid; other site 167879012173 ABC transporter signature motif; other site 167879012174 Walker B; other site 167879012175 D-loop; other site 167879012176 H-loop/switch region; other site 167879012177 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 167879012178 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 167879012179 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 167879012180 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 167879012181 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 167879012182 30S subunit binding site; other site 167879012183 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 167879012184 active site 167879012185 phosphorylation site [posttranslational modification] 167879012186 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 167879012187 AAA domain; Region: AAA_18; pfam13238 167879012188 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 167879012189 dimerization domain swap beta strand [polypeptide binding]; other site 167879012190 regulatory protein interface [polypeptide binding]; other site 167879012191 active site 167879012192 regulatory phosphorylation site [posttranslational modification]; other site 167879012193 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 167879012194 MgtE intracellular N domain; Region: MgtE_N; smart00924 167879012195 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 167879012196 Divalent cation transporter; Region: MgtE; cl00786 167879012197 peptidase PmbA; Provisional; Region: PRK11040 167879012198 Protein of unknown function (DUF615); Region: DUF615; pfam04751 167879012199 protease TldD; Provisional; Region: tldD; PRK10735 167879012200 nitrilase; Region: PLN02798 167879012201 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 167879012202 putative active site [active] 167879012203 catalytic triad [active] 167879012204 dimer interface [polypeptide binding]; other site 167879012205 TIGR02099 family protein; Region: TIGR02099 167879012206 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 167879012207 ribonuclease G; Provisional; Region: PRK11712 167879012208 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 167879012209 homodimer interface [polypeptide binding]; other site 167879012210 oligonucleotide binding site [chemical binding]; other site 167879012211 Maf-like protein; Region: Maf; pfam02545 167879012212 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 167879012213 active site 167879012214 dimer interface [polypeptide binding]; other site 167879012215 rod shape-determining protein MreD; Region: MreD; cl01087 167879012216 rod shape-determining protein MreC; Provisional; Region: PRK13922 167879012217 rod shape-determining protein MreC; Region: MreC; pfam04085 167879012218 rod shape-determining protein MreB; Provisional; Region: PRK13927 167879012219 MreB and similar proteins; Region: MreB_like; cd10225 167879012220 nucleotide binding site [chemical binding]; other site 167879012221 Mg binding site [ion binding]; other site 167879012222 putative protofilament interaction site [polypeptide binding]; other site 167879012223 RodZ interaction site [polypeptide binding]; other site 167879012224 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 167879012225 calcium mediated ligand binding site; other site 167879012226 intermolecular salt bridges; other site 167879012227 Pentraxins are plasma proteins characterized by their pentameric discoid assembly and their Ca2+ dependent ligand binding, such as Serum amyloid P component (SAP) and C-reactive Protein (CRP), which are cytokine-inducible acute-phase proteins implicated...; Region: PTX; cl00102 167879012228 calcium mediated ligand binding site; other site 167879012229 intermolecular salt bridges; other site 167879012230 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 167879012231 PEP-CTERM protein-sorting domain; Region: PEP_exosort; TIGR02595 167879012232 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 167879012233 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 167879012234 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 167879012235 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 167879012236 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 167879012237 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 167879012238 Walker A motif; other site 167879012239 ATP binding site [chemical binding]; other site 167879012240 Walker B motif; other site 167879012241 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 167879012242 TPR motif; other site 167879012243 binding surface 167879012244 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 167879012245 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 167879012246 Walker A motif; other site 167879012247 ATP binding site [chemical binding]; other site 167879012248 Walker B motif; other site 167879012249 arginine finger; other site 167879012250 Secretin N-terminal domain; Region: Secretin_N_2; pfam07655 167879012251 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 167879012252 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 167879012253 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 167879012254 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 167879012255 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 167879012256 catalytic residue [active] 167879012257 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 167879012258 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 167879012259 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 167879012260 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 167879012261 GspL periplasmic domain; Region: GspL_C; pfam12693 167879012262 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 167879012263 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 167879012264 type II secretion system protein J; Region: gspJ; TIGR01711 167879012265 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 167879012266 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 167879012267 type II secretion system protein I; Region: gspI; TIGR01707 167879012268 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 167879012269 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 167879012270 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 167879012271 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 167879012272 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 167879012273 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 167879012274 type II secretion system protein F; Region: GspF; TIGR02120 167879012275 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 167879012276 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 167879012277 type II secretion system protein E; Region: type_II_gspE; TIGR02533 167879012278 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 167879012279 Walker A motif; other site 167879012280 ATP binding site [chemical binding]; other site 167879012281 Walker B motif; other site 167879012282 type II secretion system protein D; Region: type_II_gspD; TIGR02517 167879012283 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 167879012284 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 167879012285 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 167879012286 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 167879012287 type II secretion system protein C; Region: typeII_sec_gspC; TIGR01713 167879012288 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 167879012289 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 167879012290 RNA binding surface [nucleotide binding]; other site 167879012291 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 167879012292 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 167879012293 dimerization interface [polypeptide binding]; other site 167879012294 domain crossover interface; other site 167879012295 redox-dependent activation switch; other site 167879012296 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 167879012297 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 167879012298 active site 167879012299 substrate-binding site [chemical binding]; other site 167879012300 metal-binding site [ion binding] 167879012301 ATP binding site [chemical binding]; other site 167879012302 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 167879012303 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 167879012304 dimerization interface [polypeptide binding]; other site 167879012305 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 167879012306 dimer interface [polypeptide binding]; other site 167879012307 phosphorylation site [posttranslational modification] 167879012308 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 167879012309 ATP binding site [chemical binding]; other site 167879012310 Mg2+ binding site [ion binding]; other site 167879012311 G-X-G motif; other site 167879012312 osmolarity response regulator; Provisional; Region: ompR; PRK09468 167879012313 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 167879012314 active site 167879012315 phosphorylation site [posttranslational modification] 167879012316 intermolecular recognition site; other site 167879012317 dimerization interface [polypeptide binding]; other site 167879012318 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 167879012319 DNA binding site [nucleotide binding] 167879012320 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 167879012321 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 167879012322 catalytic residues [active] 167879012323 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 167879012324 FMN-binding domain; Region: FMN_bind; pfam04205 167879012325 Maltoporin periplasmic N-terminal extension; Region: Sugarporin_N; pfam11471 167879012326 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 167879012327 Mechanosensitive ion channel; Region: MS_channel; pfam00924 167879012328 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 167879012329 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 167879012330 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 167879012331 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 167879012332 Ion channel; Region: Ion_trans_2; pfam07885 167879012333 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 167879012334 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 167879012335 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 167879012336 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 167879012337 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 167879012338 conserved cys residue [active] 167879012339 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 167879012340 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 167879012341 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 167879012342 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 167879012343 DNA-binding site [nucleotide binding]; DNA binding site 167879012344 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 167879012345 pyridoxal 5'-phosphate binding site [chemical binding]; other site 167879012346 homodimer interface [polypeptide binding]; other site 167879012347 catalytic residue [active] 167879012348 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 167879012349 EamA-like transporter family; Region: EamA; pfam00892 167879012350 EamA-like transporter family; Region: EamA; pfam00892 167879012351 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 167879012352 AMP binding site [chemical binding]; other site 167879012353 metal binding site [ion binding]; metal-binding site 167879012354 active site 167879012355 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 167879012356 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 167879012357 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 167879012358 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 167879012359 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 167879012360 ribonuclease R; Region: RNase_R; TIGR02063 167879012361 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 167879012362 RNB domain; Region: RNB; pfam00773 167879012363 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 167879012364 RNA binding site [nucleotide binding]; other site 167879012365 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 167879012366 Sel1-like repeats; Region: SEL1; smart00671 167879012367 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 167879012368 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 167879012369 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 167879012370 Zn2+ binding site [ion binding]; other site 167879012371 Mg2+ binding site [ion binding]; other site 167879012372 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 167879012373 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 167879012374 HlyD family secretion protein; Region: HlyD_3; pfam13437 167879012375 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 167879012376 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 167879012377 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 167879012378 Cl- selectivity filter; other site 167879012379 Cl- binding residues [ion binding]; other site 167879012380 pore gating glutamate residue; other site 167879012381 dimer interface [polypeptide binding]; other site 167879012382 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 167879012383 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 167879012384 PA/protease or protease-like domain interface [polypeptide binding]; other site 167879012385 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cd00190 167879012386 active site 167879012387 substrate binding sites [chemical binding]; other site 167879012388 aspartate carbamoyltransferase; Provisional; Region: PRK08192 167879012389 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 167879012390 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 167879012391 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 167879012392 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 167879012393 inhibitor-cofactor binding pocket; inhibition site 167879012394 pyridoxal 5'-phosphate binding site [chemical binding]; other site 167879012395 catalytic residue [active] 167879012396 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 167879012397 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 167879012398 dimer interface [polypeptide binding]; other site 167879012399 putative functional site; other site 167879012400 putative MPT binding site; other site 167879012401 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 167879012402 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 167879012403 FeS/SAM binding site; other site 167879012404 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 167879012405 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 167879012406 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 167879012407 GTP binding site; other site 167879012408 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 167879012409 MPT binding site; other site 167879012410 trimer interface [polypeptide binding]; other site 167879012411 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 167879012412 trimer interface [polypeptide binding]; other site 167879012413 dimer interface [polypeptide binding]; other site 167879012414 putative active site [active] 167879012415 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 167879012416 MoaE interaction surface [polypeptide binding]; other site 167879012417 MoeB interaction surface [polypeptide binding]; other site 167879012418 thiocarboxylated glycine; other site 167879012419 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 167879012420 MoaE homodimer interface [polypeptide binding]; other site 167879012421 MoaD interaction [polypeptide binding]; other site 167879012422 active site residues [active] 167879012423 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 167879012424 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 167879012425 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 167879012426 dimer interface [polypeptide binding]; other site 167879012427 conserved gate region; other site 167879012428 putative PBP binding loops; other site 167879012429 ABC-ATPase subunit interface; other site 167879012430 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 167879012431 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 167879012432 Walker A/P-loop; other site 167879012433 ATP binding site [chemical binding]; other site 167879012434 Q-loop/lid; other site 167879012435 ABC transporter signature motif; other site 167879012436 Walker B; other site 167879012437 D-loop; other site 167879012438 H-loop/switch region; other site 167879012439 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 167879012440 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 167879012441 ATP binding site [chemical binding]; other site 167879012442 substrate interface [chemical binding]; other site 167879012443 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 167879012444 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 167879012445 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 167879012446 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 167879012447 substrate binding pocket [chemical binding]; other site 167879012448 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 167879012449 membrane-bound complex binding site; other site 167879012450 hinge residues; other site 167879012451 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 167879012452 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 167879012453 HlyD family secretion protein; Region: HlyD_3; pfam13437 167879012454 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 167879012455 Alg9-like mannosyltransferase family; Region: Glyco_transf_22; cl17751 167879012456 Protein export membrane protein; Region: SecD_SecF; cl14618 167879012457 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 167879012458 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 167879012459 putative deacylase active site [active] 167879012460 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; cd00130 167879012461 PAS fold; Region: PAS_3; pfam08447 167879012462 putative active site [active] 167879012463 heme pocket [chemical binding]; other site 167879012464 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 167879012465 GAF domain; Region: GAF; pfam01590 167879012466 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879012467 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879012468 metal binding site [ion binding]; metal-binding site 167879012469 active site 167879012470 I-site; other site 167879012471 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 167879012472 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 167879012473 Helix-turn-helix domain; Region: HTH_18; pfam12833 167879012474 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 167879012475 SnoaL-like domain; Region: SnoaL_2; pfam12680 167879012476 TIGR02922 family protein; Region: TIGR02922 167879012477 D-serine deaminase transcriptional activator; Region: dsdC; TIGR02036 167879012478 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879012479 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 167879012480 dimerization interface [polypeptide binding]; other site 167879012481 substrate binding pocket [chemical binding]; other site 167879012482 D-Serine dehydratase is a pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of L- or D-serine to pyruvate and ammonia. D-serine dehydratase serves as a detoxifying enzyme in most E. coli strains where D-serine is a competitive...; Region: D-Ser-dehyd; cd06447 167879012483 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 167879012484 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 167879012485 catalytic residue [active] 167879012486 Predicted dehydrogenase [General function prediction only]; Region: COG0579 167879012487 hydroxyglutarate oxidase; Provisional; Region: PRK11728 167879012488 CsiD; Region: CsiD; pfam08943 167879012489 substrate binding pocket [chemical binding]; other site 167879012490 active site 167879012491 iron coordination sites [ion binding]; other site 167879012492 Transcriptional regulator [Transcription]; Region: LysR; COG0583 167879012493 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879012494 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 167879012495 dimerization interface [polypeptide binding]; other site 167879012496 putative aminotransferase; Validated; Region: PRK07480 167879012497 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 167879012498 inhibitor-cofactor binding pocket; inhibition site 167879012499 pyridoxal 5'-phosphate binding site [chemical binding]; other site 167879012500 catalytic residue [active] 167879012501 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 167879012502 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 167879012503 inhibitor-cofactor binding pocket; inhibition site 167879012504 pyridoxal 5'-phosphate binding site [chemical binding]; other site 167879012505 catalytic residue [active] 167879012506 succinic semialdehyde dehydrogenase; Region: PLN02278 167879012507 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 167879012508 tetramerization interface [polypeptide binding]; other site 167879012509 NAD(P) binding site [chemical binding]; other site 167879012510 catalytic residues [active] 167879012511 Transcriptional regulator [Transcription]; Region: LysR; COG0583 167879012512 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879012513 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 167879012514 dimerization interface [polypeptide binding]; other site 167879012515 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 167879012516 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 167879012517 FAD binding site [chemical binding]; other site 167879012518 substrate binding pocket [chemical binding]; other site 167879012519 catalytic base [active] 167879012520 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 167879012521 CoA-transferase family III; Region: CoA_transf_3; pfam02515 167879012522 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 167879012523 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 167879012524 NAD binding site [chemical binding]; other site 167879012525 catalytic residues [active] 167879012526 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 167879012527 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 167879012528 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 167879012529 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 167879012530 Walker A/P-loop; other site 167879012531 ATP binding site [chemical binding]; other site 167879012532 Q-loop/lid; other site 167879012533 ABC transporter signature motif; other site 167879012534 Walker B; other site 167879012535 D-loop; other site 167879012536 H-loop/switch region; other site 167879012537 TOBE domain; Region: TOBE_2; pfam08402 167879012538 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 167879012539 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 167879012540 dimer interface [polypeptide binding]; other site 167879012541 conserved gate region; other site 167879012542 putative PBP binding loops; other site 167879012543 ABC-ATPase subunit interface; other site 167879012544 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 167879012545 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 167879012546 dimer interface [polypeptide binding]; other site 167879012547 conserved gate region; other site 167879012548 putative PBP binding loops; other site 167879012549 ABC-ATPase subunit interface; other site 167879012550 Cache domain; Region: Cache_1; pfam02743 167879012551 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 167879012552 dimerization interface [polypeptide binding]; other site 167879012553 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 167879012554 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 167879012555 dimer interface [polypeptide binding]; other site 167879012556 putative CheW interface [polypeptide binding]; other site 167879012557 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 167879012558 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 167879012559 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 167879012560 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 167879012561 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 167879012562 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 167879012563 catalytic triad [active] 167879012564 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 167879012565 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 167879012566 non-specific DNA binding site [nucleotide binding]; other site 167879012567 salt bridge; other site 167879012568 sequence-specific DNA binding site [nucleotide binding]; other site 167879012569 Cupin domain; Region: Cupin_2; pfam07883 167879012570 conserved hypothetical protein, proteobacterial; Region: gcw_chp; TIGR02001 167879012571 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 167879012572 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 167879012573 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879012574 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879012575 metal binding site [ion binding]; metal-binding site 167879012576 active site 167879012577 I-site; other site 167879012578 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879012579 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879012580 metal binding site [ion binding]; metal-binding site 167879012581 active site 167879012582 I-site; other site 167879012583 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 167879012584 FAD binding domain; Region: FAD_binding_4; pfam01565 167879012585 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 167879012586 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 167879012587 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 167879012588 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 167879012589 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 167879012590 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 167879012591 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 167879012592 Cysteine-rich domain; Region: CCG; pfam02754 167879012593 Cysteine-rich domain; Region: CCG; pfam02754 167879012594 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 167879012595 L-lactate permease; Region: Lactate_perm; cl00701 167879012596 Transcriptional regulator [Transcription]; Region: LysR; COG0583 167879012597 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879012598 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 167879012599 putative effector binding pocket; other site 167879012600 dimerization interface [polypeptide binding]; other site 167879012601 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 167879012602 dimerization interface [polypeptide binding]; other site 167879012603 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 167879012604 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 167879012605 dimer interface [polypeptide binding]; other site 167879012606 putative CheW interface [polypeptide binding]; other site 167879012607 Uncharacterized conserved protein [Function unknown]; Region: COG2128 167879012608 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 167879012609 Helix-turn-helix domain; Region: HTH_18; pfam12833 167879012610 Response regulator receiver domain; Region: Response_reg; pfam00072 167879012611 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 167879012612 active site 167879012613 phosphorylation site [posttranslational modification] 167879012614 intermolecular recognition site; other site 167879012615 dimerization interface [polypeptide binding]; other site 167879012616 Hemerythrin; Region: Hemerythrin; cd12107 167879012617 Fe binding site [ion binding]; other site 167879012618 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; cd00130 167879012619 PAS domain; Region: PAS_9; pfam13426 167879012620 putative active site [active] 167879012621 heme pocket [chemical binding]; other site 167879012622 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879012623 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879012624 metal binding site [ion binding]; metal-binding site 167879012625 active site 167879012626 I-site; other site 167879012627 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 167879012628 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 167879012629 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 167879012630 Predicted membrane protein [Function unknown]; Region: COG2855 167879012631 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 167879012632 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879012633 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 167879012634 putative dimerization interface [polypeptide binding]; other site 167879012635 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 167879012636 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 167879012637 FtsX-like permease family; Region: FtsX; pfam02687 167879012638 FtsX-like permease family; Region: FtsX; pfam02687 167879012639 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 167879012640 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 167879012641 Walker A/P-loop; other site 167879012642 ATP binding site [chemical binding]; other site 167879012643 Q-loop/lid; other site 167879012644 ABC transporter signature motif; other site 167879012645 Walker B; other site 167879012646 D-loop; other site 167879012647 H-loop/switch region; other site 167879012648 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 167879012649 HlyD family secretion protein; Region: HlyD_3; pfam13437 167879012650 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 167879012651 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 167879012652 active site 167879012653 phosphorylation site [posttranslational modification] 167879012654 intermolecular recognition site; other site 167879012655 dimerization interface [polypeptide binding]; other site 167879012656 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 167879012657 Walker A motif; other site 167879012658 ATP binding site [chemical binding]; other site 167879012659 Walker B motif; other site 167879012660 arginine finger; other site 167879012661 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 167879012662 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 167879012663 PAS domain; Region: PAS; smart00091 167879012664 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 167879012665 ATP binding site [chemical binding]; other site 167879012666 G-X-G motif; other site 167879012667 FOG: WD40 repeat [General function prediction only]; Region: COG2319 167879012668 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 167879012669 structural tetrad; other site 167879012670 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 167879012671 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 167879012672 putative NAD(P) binding site [chemical binding]; other site 167879012673 putative active site [active] 167879012674 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 167879012675 dimerization interface [polypeptide binding]; other site 167879012676 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 167879012677 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 167879012678 dimer interface [polypeptide binding]; other site 167879012679 putative CheW interface [polypeptide binding]; other site 167879012680 Protein of unknown function (DUF1318); Region: DUF1318; pfam07027 167879012681 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 167879012682 Dicarboxylate transport; Region: DctA-YdbH; pfam11739 167879012683 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 167879012684 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 167879012685 catalytic residue [active] 167879012686 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 167879012687 catalytic residues [active] 167879012688 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 167879012689 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 167879012690 peroxiredoxin; Region: AhpC; TIGR03137 167879012691 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 167879012692 dimer interface [polypeptide binding]; other site 167879012693 decamer (pentamer of dimers) interface [polypeptide binding]; other site 167879012694 catalytic triad [active] 167879012695 peroxidatic and resolving cysteines [active] 167879012696 Transcriptional regulator [Transcription]; Region: LysR; COG0583 167879012697 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879012698 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 167879012699 dimerization interface [polypeptide binding]; other site 167879012700 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 167879012701 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 167879012702 catalytic nucleophile [active] 167879012703 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 167879012704 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 167879012705 Opacity-associated protein A N-terminal motif; Region: OapA_N; pfam08525 167879012706 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 167879012707 Peptidase family M23; Region: Peptidase_M23; pfam01551 167879012708 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 167879012709 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 167879012710 active site 167879012711 HIGH motif; other site 167879012712 dimer interface [polypeptide binding]; other site 167879012713 KMSKS motif; other site 167879012714 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 167879012715 RNA binding surface [nucleotide binding]; other site 167879012716 glutaminase; Reviewed; Region: PRK12356 167879012717 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 167879012718 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 167879012719 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 167879012720 4Fe-4S binding domain; Region: Fer4_5; pfam12801 167879012721 nitrous-oxide reductase; Validated; Region: PRK02888 167879012722 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 167879012723 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 167879012724 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 167879012725 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 167879012726 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 167879012727 Walker A/P-loop; other site 167879012728 ATP binding site [chemical binding]; other site 167879012729 Q-loop/lid; other site 167879012730 ABC transporter signature motif; other site 167879012731 Walker B; other site 167879012732 D-loop; other site 167879012733 H-loop/switch region; other site 167879012734 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 167879012735 NosL; Region: NosL; pfam05573 167879012736 TraB family; Region: TraB; pfam01963 167879012737 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 167879012738 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 167879012739 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 167879012740 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 167879012741 putative acyl-acceptor binding pocket; other site 167879012742 Predicted membrane protein [Function unknown]; Region: COG2860 167879012743 UPF0126 domain; Region: UPF0126; pfam03458 167879012744 UPF0126 domain; Region: UPF0126; pfam03458 167879012745 CobD/Cbib protein; Region: CobD_Cbib; cl00561 167879012746 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 167879012747 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 167879012748 pantothenate kinase; Reviewed; Region: PRK13322 167879012749 Biotin operon repressor [Transcription]; Region: BirA; COG1654 167879012750 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 167879012751 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 167879012752 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 167879012753 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 167879012754 FAD binding domain; Region: FAD_binding_4; pfam01565 167879012755 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 167879012756 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 167879012757 dimer interface [polypeptide binding]; other site 167879012758 FMN binding site [chemical binding]; other site 167879012759 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 167879012760 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 167879012761 NADP binding site [chemical binding]; other site 167879012762 dimer interface [polypeptide binding]; other site 167879012763 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 167879012764 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 167879012765 phage shock protein A; Region: phageshock_pspA; TIGR02977 167879012766 PspC domain; Region: PspC; pfam04024 167879012767 enoyl-CoA hydratase; Provisional; Region: PRK06688 167879012768 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 167879012769 substrate binding site [chemical binding]; other site 167879012770 oxyanion hole (OAH) forming residues; other site 167879012771 trimer interface [polypeptide binding]; other site 167879012772 Protein of unknown function (DUF461); Region: DUF461; pfam04314 167879012773 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; pfam10095 167879012774 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 167879012775 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 167879012776 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 167879012777 N-acetyl-D-glucosamine binding site [chemical binding]; other site 167879012778 catalytic residue [active] 167879012779 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 167879012780 Flavodoxin; Region: Flavodoxin_1; pfam00258 167879012781 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 167879012782 FAD binding pocket [chemical binding]; other site 167879012783 FAD binding motif [chemical binding]; other site 167879012784 catalytic residues [active] 167879012785 NAD binding pocket [chemical binding]; other site 167879012786 phosphate binding motif [ion binding]; other site 167879012787 beta-alpha-beta structure motif; other site 167879012788 sulfite reductase subunit beta; Provisional; Region: PRK13504 167879012789 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 167879012790 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 167879012791 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 167879012792 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 167879012793 Active Sites [active] 167879012794 Tetratricopeptide repeat; Region: TPR_12; pfam13424 167879012795 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 167879012796 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 167879012797 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 167879012798 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 167879012799 motif 1; other site 167879012800 dimer interface [polypeptide binding]; other site 167879012801 active site 167879012802 motif 2; other site 167879012803 motif 3; other site 167879012804 elongation factor Tu; Reviewed; Region: PRK00049 167879012805 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 167879012806 G1 box; other site 167879012807 GEF interaction site [polypeptide binding]; other site 167879012808 GTP/Mg2+ binding site [chemical binding]; other site 167879012809 Switch I region; other site 167879012810 G2 box; other site 167879012811 G3 box; other site 167879012812 Switch II region; other site 167879012813 G4 box; other site 167879012814 G5 box; other site 167879012815 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 167879012816 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 167879012817 Antibiotic Binding Site [chemical binding]; other site 167879012818 elongation factor G; Reviewed; Region: PRK00007 167879012819 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 167879012820 G1 box; other site 167879012821 putative GEF interaction site [polypeptide binding]; other site 167879012822 GTP/Mg2+ binding site [chemical binding]; other site 167879012823 Switch I region; other site 167879012824 G2 box; other site 167879012825 G3 box; other site 167879012826 Switch II region; other site 167879012827 G4 box; other site 167879012828 G5 box; other site 167879012829 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 167879012830 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 167879012831 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 167879012832 30S ribosomal protein S7; Validated; Region: PRK05302 167879012833 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 167879012834 S17 interaction site [polypeptide binding]; other site 167879012835 S8 interaction site; other site 167879012836 16S rRNA interaction site [nucleotide binding]; other site 167879012837 streptomycin interaction site [chemical binding]; other site 167879012838 23S rRNA interaction site [nucleotide binding]; other site 167879012839 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 167879012840 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 167879012841 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 167879012842 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 167879012843 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 167879012844 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 167879012845 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 167879012846 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 167879012847 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 167879012848 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 167879012849 DNA binding site [nucleotide binding] 167879012850 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 167879012851 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 167879012852 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 167879012853 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 167879012854 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 167879012855 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 167879012856 RPB11 interaction site [polypeptide binding]; other site 167879012857 RPB12 interaction site [polypeptide binding]; other site 167879012858 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 167879012859 RPB3 interaction site [polypeptide binding]; other site 167879012860 RPB1 interaction site [polypeptide binding]; other site 167879012861 RPB11 interaction site [polypeptide binding]; other site 167879012862 RPB10 interaction site [polypeptide binding]; other site 167879012863 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 167879012864 core dimer interface [polypeptide binding]; other site 167879012865 peripheral dimer interface [polypeptide binding]; other site 167879012866 L10 interface [polypeptide binding]; other site 167879012867 L11 interface [polypeptide binding]; other site 167879012868 putative EF-Tu interaction site [polypeptide binding]; other site 167879012869 putative EF-G interaction site [polypeptide binding]; other site 167879012870 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 167879012871 23S rRNA interface [nucleotide binding]; other site 167879012872 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 167879012873 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 167879012874 mRNA/rRNA interface [nucleotide binding]; other site 167879012875 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 167879012876 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 167879012877 23S rRNA interface [nucleotide binding]; other site 167879012878 L7/L12 interface [polypeptide binding]; other site 167879012879 putative thiostrepton binding site; other site 167879012880 L25 interface [polypeptide binding]; other site 167879012881 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 167879012882 Thrombospondin type 3 repeat; Region: TSP_3; pfam02412 167879012883 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 167879012884 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 167879012885 ligand binding site [chemical binding]; other site 167879012886 Ion transport protein; Region: Ion_trans; pfam00520 167879012887 N-terminal Early set domain associated with the catalytic domain of cellulase; Region: E_set_Cellulase_N; cd02850 167879012888 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; cl02959 167879012889 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 167879012890 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 167879012891 putative homodimer interface [polypeptide binding]; other site 167879012892 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 167879012893 heterodimer interface [polypeptide binding]; other site 167879012894 homodimer interface [polypeptide binding]; other site 167879012895 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 167879012896 elongation factor Tu; Reviewed; Region: PRK00049 167879012897 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 167879012898 G1 box; other site 167879012899 GEF interaction site [polypeptide binding]; other site 167879012900 GTP/Mg2+ binding site [chemical binding]; other site 167879012901 Switch I region; other site 167879012902 G2 box; other site 167879012903 G3 box; other site 167879012904 Switch II region; other site 167879012905 G4 box; other site 167879012906 G5 box; other site 167879012907 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 167879012908 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 167879012909 Antibiotic Binding Site [chemical binding]; other site 167879012910 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 167879012911 dUTPase; Region: dUTPase_2; pfam08761 167879012912 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in dimeric 2-Deoxyuridine 5'-triphosphate nucleotidohydrolase and similar proteins; Region: NTP-PPase_dUTPase; cd11527 167879012913 active site 167879012914 homodimer interface [polypeptide binding]; other site 167879012915 metal binding site [ion binding]; metal-binding site 167879012916 PAS fold; Region: PAS_4; pfam08448 167879012917 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; cd00130 167879012918 putative active site [active] 167879012919 heme pocket [chemical binding]; other site 167879012920 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879012921 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879012922 metal binding site [ion binding]; metal-binding site 167879012923 active site 167879012924 I-site; other site 167879012925 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 167879012926 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 167879012927 conserved cys residue [active] 167879012928 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 167879012929 "elongating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type I and II and polyketide synthases.They are characterized by the utlization of acyl carrier protein (ACP)...; Region: elong_cond_enzymes; cd00828 167879012930 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 167879012931 active site 167879012932 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 167879012933 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 167879012934 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 167879012935 DNA topoisomerase III; Provisional; Region: PRK07726 167879012936 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 167879012937 active site 167879012938 putative interdomain interaction site [polypeptide binding]; other site 167879012939 putative metal-binding site [ion binding]; other site 167879012940 putative nucleotide binding site [chemical binding]; other site 167879012941 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 167879012942 domain I; other site 167879012943 DNA binding groove [nucleotide binding] 167879012944 phosphate binding site [ion binding]; other site 167879012945 domain II; other site 167879012946 domain III; other site 167879012947 nucleotide binding site [chemical binding]; other site 167879012948 catalytic site [active] 167879012949 domain IV; other site 167879012950 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 167879012951 putative hydrophobic ligand binding site [chemical binding]; other site 167879012952 protein interface [polypeptide binding]; other site 167879012953 Ion channel; Region: Ion_trans_2; pfam07885 167879012954 RIO kinase family, catalytic domain. The RIO kinase catalytic domain 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), aminoglycoside...; Region: RIO; cl17248 167879012955 ATP binding site [chemical binding]; other site 167879012956 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 167879012957 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 167879012958 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 167879012959 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 167879012960 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 167879012961 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 167879012962 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 167879012963 active site residue [active] 167879012964 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 167879012965 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 167879012966 substrate binding site [chemical binding]; other site 167879012967 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 167879012968 substrate binding site [chemical binding]; other site 167879012969 ligand binding site [chemical binding]; other site 167879012970 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 167879012971 Aconitate hydratase 2 N-terminus; Region: Aconitase_2_N; pfam06434 167879012972 substrate binding site [chemical binding]; other site 167879012973 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 167879012974 substrate binding site [chemical binding]; other site 167879012975 ligand binding site [chemical binding]; other site 167879012976 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 167879012977 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 167879012978 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 167879012979 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 167879012980 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 167879012981 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 167879012982 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 167879012983 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 167879012984 E3 interaction surface; other site 167879012985 lipoyl attachment site [posttranslational modification]; other site 167879012986 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 167879012987 E3 interaction surface; other site 167879012988 lipoyl attachment site [posttranslational modification]; other site 167879012989 e3 binding domain; Region: E3_binding; pfam02817 167879012990 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 167879012991 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 167879012992 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 167879012993 dimer interface [polypeptide binding]; other site 167879012994 TPP-binding site [chemical binding]; other site 167879012995 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 167879012996 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 167879012997 DNA-binding site [nucleotide binding]; DNA binding site 167879012998 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 167879012999 regulatory protein AmpE; Provisional; Region: PRK10987 167879013000 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 167879013001 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 167879013002 amidase catalytic site [active] 167879013003 Zn binding residues [ion binding]; other site 167879013004 substrate binding site [chemical binding]; other site 167879013005 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 167879013006 catalytic motif [active] 167879013007 Catalytic residue [active] 167879013008 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 167879013009 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 167879013010 dimerization interface [polypeptide binding]; other site 167879013011 active site 167879013012 Protein of unknown function (DUF3667); Region: DUF3667; pfam12412 167879013013 Protein of unknown function (DUF1232); Region: DUF1232; pfam06803 167879013014 methionine sulfoxide reductase A; Provisional; Region: PRK14054 167879013015 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 167879013016 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 167879013017 ATP binding site [chemical binding]; other site 167879013018 G-X-G motif; other site 167879013019 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 167879013020 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 167879013021 active site 167879013022 phosphorylation site [posttranslational modification] 167879013023 intermolecular recognition site; other site 167879013024 dimerization interface [polypeptide binding]; other site 167879013025 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 167879013026 Protein of unknown function (DUF3083); Region: DUF3083; pfam11281 167879013027 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 167879013028 Ribosome modulation factor; Region: RMF; pfam04957 167879013029 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 167879013030 HemN C-terminal domain; Region: HemN_C; pfam06969 167879013031 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 167879013032 Der GTPase activator; Provisional; Region: PRK05244 167879013033 acyl-CoA thioesterase II; Provisional; Region: PRK10526 167879013034 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 167879013035 active site 167879013036 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 167879013037 catalytic triad [active] 167879013038 dimer interface [polypeptide binding]; other site 167879013039 Protein of unknown function (DUF962); Region: DUF962; cl01879 167879013040 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 167879013041 Mechanosensitive ion channel; Region: MS_channel; pfam00924 167879013042 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 167879013043 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 167879013044 putative acyl-acceptor binding pocket; other site 167879013045 gamma-glutamyl kinase; Provisional; Region: PRK05429 167879013046 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 167879013047 nucleotide binding site [chemical binding]; other site 167879013048 homotetrameric interface [polypeptide binding]; other site 167879013049 putative phosphate binding site [ion binding]; other site 167879013050 putative allosteric binding site; other site 167879013051 PUA domain; Region: PUA; pfam01472 167879013052 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 167879013053 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 167879013054 putative catalytic cysteine [active] 167879013055 putative chaperone; Provisional; Region: PRK11678 167879013056 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 167879013057 nucleotide binding site [chemical binding]; other site 167879013058 putative NEF/HSP70 interaction site [polypeptide binding]; other site 167879013059 SBD interface [polypeptide binding]; other site 167879013060 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 167879013061 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 167879013062 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 167879013063 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 167879013064 ketol-acid reductoisomerase; Validated; Region: PRK05225 167879013065 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 167879013066 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 167879013067 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 167879013068 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879013069 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 167879013070 The C-terminal substrate binding of LysR-type transcriptional regulator IlvY, which activates the expression of ilvC gene that encoding acetohydroxy acid isomeroreductase for the biosynthesis of branched amino acids; contains the type 2 periplasmic bindin; Region: PBP2_IlvY; cd08430 167879013071 putative dimerization interface [polypeptide binding]; other site 167879013072 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 167879013073 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 167879013074 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 167879013075 Walker A motif; other site 167879013076 ATP binding site [chemical binding]; other site 167879013077 Walker B motif; other site 167879013078 arginine finger; other site 167879013079 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 167879013080 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 167879013081 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 167879013082 dimer interface [polypeptide binding]; other site 167879013083 PYR/PP interface [polypeptide binding]; other site 167879013084 TPP binding site [chemical binding]; other site 167879013085 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 167879013086 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 167879013087 TPP-binding site [chemical binding]; other site 167879013088 dimer interface [polypeptide binding]; other site 167879013089 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 167879013090 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 167879013091 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 167879013092 homodimer interface [polypeptide binding]; other site 167879013093 substrate-cofactor binding pocket; other site 167879013094 catalytic residue [active] 167879013095 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 167879013096 threonine dehydratase; Reviewed; Region: PRK09224 167879013097 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 167879013098 tetramer interface [polypeptide binding]; other site 167879013099 pyridoxal 5'-phosphate binding site [chemical binding]; other site 167879013100 catalytic residue [active] 167879013101 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 167879013102 putative Ile/Val binding site [chemical binding]; other site 167879013103 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 167879013104 putative Ile/Val binding site [chemical binding]; other site 167879013105 RNA polymerase sigma factor; Provisional; Region: PRK11922 167879013106 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 167879013107 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 167879013108 DNA binding residues [nucleotide binding] 167879013109 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 167879013110 Transposase; Region: DEDD_Tnp_IS110; pfam01548 167879013111 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 167879013112 Outer membrane efflux protein; Region: OEP; pfam02321 167879013113 Outer membrane efflux protein; Region: OEP; pfam02321 167879013114 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 167879013115 HlyD family secretion protein; Region: HlyD_3; pfam13437 167879013116 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 167879013117 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 167879013118 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 167879013119 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 167879013120 substrate binding pocket [chemical binding]; other site 167879013121 membrane-bound complex binding site; other site 167879013122 hinge residues; other site 167879013123 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 167879013124 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 167879013125 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 167879013126 catalytic loop [active] 167879013127 iron binding site [ion binding]; other site 167879013128 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 167879013129 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 167879013130 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 167879013131 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 167879013132 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 167879013133 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 167879013134 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 167879013135 XdhC Rossmann domain; Region: XdhC_C; pfam13478 167879013136 allantoinase; Region: allantoinase; TIGR03178 167879013137 L-Hydantoinases (L-HYDs) and Allantoinase (ALN); L-Hydantoinases are a member of the dihydropyrimidinase family, which catalyzes the reversible hydrolytic ring opening of dihydropyrimidines and hydantoins (five-membered cyclic diamides used in...; Region: L-HYD_ALN; cd01315 167879013138 active site 167879013139 allantoicase; Provisional; Region: PRK13257 167879013140 Allantoicase repeat; Region: Allantoicase; pfam03561 167879013141 Allantoicase repeat; Region: Allantoicase; pfam03561 167879013142 OHCU decarboxylase; Region: UraD_2; TIGR03180 167879013143 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 167879013144 active site 167879013145 homotetramer interface [polypeptide binding]; other site 167879013146 ureidoglycolate hydrolase; Provisional; Region: PRK03606 167879013147 guanine deaminase; Provisional; Region: PRK09228 167879013148 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 167879013149 active site 167879013150 Predicted membrane protein [Function unknown]; Region: COG3748 167879013151 Protein of unknown function (DUF989); Region: DUF989; pfam06181 167879013152 Cytochrome c; Region: Cytochrom_C; pfam00034 167879013153 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 167879013154 active site 167879013155 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 167879013156 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 167879013157 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 167879013158 FOG: CBS domain [General function prediction only]; Region: COG0517 167879013159 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_24; cd04637 167879013160 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 167879013161 homodimer interface [polypeptide binding]; other site 167879013162 pyridoxal 5'-phosphate binding site [chemical binding]; other site 167879013163 catalytic residue [active] 167879013164 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 167879013165 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 167879013166 Malic enzyme, N-terminal domain; Region: malic; pfam00390 167879013167 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 167879013168 putative NAD(P) binding site [chemical binding]; other site 167879013169 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 167879013170 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 167879013171 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 167879013172 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 167879013173 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 167879013174 substrate binding site [chemical binding]; other site 167879013175 putative acetyltransferase; Provisional; Region: PRK03624 167879013176 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 167879013177 Coenzyme A binding pocket [chemical binding]; other site 167879013178 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 167879013179 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 167879013180 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 167879013181 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Low Specificity D-Threonine Aldolase; Region: PLPDE_III_LS_D-TA; cd06819 167879013182 dimer interface [polypeptide binding]; other site 167879013183 active site 167879013184 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 167879013185 substrate binding site [chemical binding]; other site 167879013186 catalytic residue [active] 167879013187 serine racemase; Region: PLN02970 167879013188 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 167879013189 tetramer interface [polypeptide binding]; other site 167879013190 pyridoxal 5'-phosphate binding site [chemical binding]; other site 167879013191 catalytic residue [active] 167879013192 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 167879013193 Transcriptional regulator [Transcription]; Region: IclR; COG1414 167879013194 Bacterial transcriptional regulator; Region: IclR; pfam01614 167879013195 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 167879013196 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 167879013197 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 167879013198 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 167879013199 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 167879013200 Major Facilitator Superfamily; Region: MFS_1; pfam07690 167879013201 putative substrate translocation pore; other site 167879013202 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 167879013203 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 167879013204 Coenzyme A binding pocket [chemical binding]; other site 167879013205 Helix-turn-helix domain; Region: HTH_18; pfam12833 167879013206 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 167879013207 Modulator of Rho-dependent transcription termination (ROF); Region: ROF; cl09210 167879013208 Domain of unknown function (DUF2024); Region: DUF2024; pfam09630 167879013209 Transcriptional regulators [Transcription]; Region: MarR; COG1846 167879013210 MarR family; Region: MarR_2; pfam12802 167879013211 MarR family; Region: MarR_2; cl17246 167879013212 6-N-hydroxylaminopurine resistance protein; Provisional; Region: PRK11536 167879013213 MOSC domain; Region: MOSC; pfam03473 167879013214 Protein of unknown function, DUF417; Region: DUF417; cl01162 167879013215 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 167879013216 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 167879013217 catalytic triad [active] 167879013218 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 167879013219 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 167879013220 Maltoporin periplasmic N-terminal extension; Region: Sugarporin_N; pfam11471 167879013221 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 167879013222 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 167879013223 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cd00640 167879013224 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 167879013225 catalytic residue [active] 167879013226 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 167879013227 EamA-like transporter family; Region: EamA; pfam00892 167879013228 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 167879013229 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 167879013230 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 167879013231 active site 167879013232 DctM-like transporters; Region: DctM; pfam06808 167879013233 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 167879013234 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 167879013235 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 167879013236 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 167879013237 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 167879013238 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 167879013239 metal binding site [ion binding]; metal-binding site 167879013240 putative dimer interface [polypeptide binding]; other site 167879013241 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 167879013242 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 167879013243 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 167879013244 putative DNA binding site [nucleotide binding]; other site 167879013245 putative Zn2+ binding site [ion binding]; other site 167879013246 AsnC family; Region: AsnC_trans_reg; pfam01037 167879013247 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 167879013248 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 167879013249 active site 167879013250 catalytic tetrad [active] 167879013251 Transcriptional regulator [Transcription]; Region: LysR; COG0583 167879013252 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879013253 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 167879013254 putative effector binding pocket; other site 167879013255 dimerization interface [polypeptide binding]; other site 167879013256 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 167879013257 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 167879013258 active site 167879013259 phosphorylation site [posttranslational modification] 167879013260 intermolecular recognition site; other site 167879013261 dimerization interface [polypeptide binding]; other site 167879013262 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; cd00130 167879013263 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 167879013264 putative active site [active] 167879013265 heme pocket [chemical binding]; other site 167879013266 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 167879013267 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; cd00130 167879013268 putative active site [active] 167879013269 heme pocket [chemical binding]; other site 167879013270 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 167879013271 dimer interface [polypeptide binding]; other site 167879013272 phosphorylation site [posttranslational modification] 167879013273 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 167879013274 ATP binding site [chemical binding]; other site 167879013275 Mg2+ binding site [ion binding]; other site 167879013276 G-X-G motif; other site 167879013277 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 167879013278 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 167879013279 DNA binding residues [nucleotide binding] 167879013280 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 167879013281 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 167879013282 active site 167879013283 phosphorylation site [posttranslational modification] 167879013284 intermolecular recognition site; other site 167879013285 dimerization interface [polypeptide binding]; other site 167879013286 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; cd00130 167879013287 PAS domain; Region: PAS_9; pfam13426 167879013288 putative active site [active] 167879013289 heme pocket [chemical binding]; other site 167879013290 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 167879013291 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 167879013292 dimer interface [polypeptide binding]; other site 167879013293 putative CheW interface [polypeptide binding]; other site 167879013294 GAF domain; Region: GAF; cl17456 167879013295 PAS fold; Region: PAS_3; pfam08447 167879013296 PAS domain S-box; Region: sensory_box; TIGR00229 167879013297 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; cd00130 167879013298 putative active site [active] 167879013299 heme pocket [chemical binding]; other site 167879013300 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879013301 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879013302 metal binding site [ion binding]; metal-binding site 167879013303 active site 167879013304 I-site; other site 167879013305 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 167879013306 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 167879013307 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 167879013308 Moco binding site; other site 167879013309 metal coordination site [ion binding]; other site 167879013310 Cytochrome c; Region: Cytochrom_C; cl11414 167879013311 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 167879013312 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 167879013313 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 167879013314 CoenzymeA binding site [chemical binding]; other site 167879013315 subunit interaction site [polypeptide binding]; other site 167879013316 PHB binding site; other site 167879013317 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 167879013318 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 167879013319 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 167879013320 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 167879013321 dimer interface [polypeptide binding]; other site 167879013322 conserved gate region; other site 167879013323 putative PBP binding loops; other site 167879013324 ABC-ATPase subunit interface; other site 167879013325 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 167879013326 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 167879013327 Walker A/P-loop; other site 167879013328 ATP binding site [chemical binding]; other site 167879013329 Q-loop/lid; other site 167879013330 ABC transporter signature motif; other site 167879013331 Walker B; other site 167879013332 D-loop; other site 167879013333 H-loop/switch region; other site 167879013334 Transcriptional regulator [Transcription]; Region: LysR; COG0583 167879013335 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 167879013336 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 167879013337 putative effector binding pocket; other site 167879013338 dimerization interface [polypeptide binding]; other site 167879013339 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 167879013340 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 167879013341 NAD(P) binding site [chemical binding]; other site 167879013342 active site 167879013343 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 167879013344 PEP-CTERM motif; Region: VPEP; pfam07589 167879013345 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879013346 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879013347 metal binding site [ion binding]; metal-binding site 167879013348 active site 167879013349 I-site; other site 167879013350 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 167879013351 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 167879013352 glutaminase active site [active] 167879013353 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 167879013354 dimer interface [polypeptide binding]; other site 167879013355 active site 167879013356 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 167879013357 dimer interface [polypeptide binding]; other site 167879013358 active site 167879013359 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 167879013360 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 167879013361 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 167879013362 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 167879013363 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 167879013364 Substrate binding site; other site 167879013365 Mg++ binding site; other site 167879013366 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 167879013367 active site 167879013368 substrate binding site [chemical binding]; other site 167879013369 CoA binding site [chemical binding]; other site 167879013370 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 167879013371 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 167879013372 [4Fe-4S] binding site [ion binding]; other site 167879013373 molybdopterin cofactor binding site; other site 167879013374 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 167879013375 molybdopterin cofactor binding site; other site 167879013376 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 167879013377 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 167879013378 nitrite reductase subunit NirD; Provisional; Region: PRK14989 167879013379 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 167879013380 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 167879013381 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 167879013382 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 167879013383 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 167879013384 Cache domain; Region: Cache_1; pfam02743 167879013385 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879013386 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879013387 metal binding site [ion binding]; metal-binding site 167879013388 active site 167879013389 I-site; other site 167879013390 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 167879013391 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 167879013392 active site 167879013393 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 167879013394 Catalytic domain of Protein Kinases; Region: PKc; cd00180 167879013395 active site 167879013396 ATP binding site [chemical binding]; other site 167879013397 substrate binding site [chemical binding]; other site 167879013398 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 167879013399 substrate binding site [chemical binding]; other site 167879013400 activation loop (A-loop); other site 167879013401 activation loop (A-loop); other site 167879013402 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 167879013403 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 167879013404 putative substrate translocation pore; other site 167879013405 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 167879013406 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 167879013407 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 167879013408 Na binding site [ion binding]; other site 167879013409 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 167879013410 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 167879013411 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cl00047 167879013412 ligand binding site [chemical binding]; other site 167879013413 flexible hinge region; other site 167879013414 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 167879013415 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 167879013416 metal binding triad; other site 167879013417 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 167879013418 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 167879013419 active site 167879013420 catalytic site [active] 167879013421 substrate binding site [chemical binding]; other site 167879013422 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 167879013423 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 167879013424 interface (dimer of trimers) [polypeptide binding]; other site 167879013425 Substrate-binding/catalytic site; other site 167879013426 Zn-binding sites [ion binding]; other site 167879013427 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 167879013428 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 167879013429 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 167879013430 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 167879013431 N-terminal plug; other site 167879013432 ligand-binding site [chemical binding]; other site 167879013433 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 167879013434 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 167879013435 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 167879013436 dimer interface [polypeptide binding]; other site 167879013437 putative CheW interface [polypeptide binding]; other site 167879013438 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 167879013439 HAMP domain; Region: HAMP; pfam00672 167879013440 dimerization interface [polypeptide binding]; other site 167879013441 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 167879013442 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 167879013443 dimer interface [polypeptide binding]; other site 167879013444 putative CheW interface [polypeptide binding]; other site 167879013445 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 167879013446 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 167879013447 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 167879013448 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 167879013449 RNA binding site [nucleotide binding]; other site 167879013450 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 167879013451 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 167879013452 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 167879013453 F plasmid transfer operon, TraF, protein; Region: TraF_2; pfam13729 167879013454 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 167879013455 active site 167879013456 Protein of unknown function (DUF445); Region: DUF445; pfam04286 167879013457 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 167879013458 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 167879013459 pyridoxal 5'-phosphate binding site [chemical binding]; other site 167879013460 homodimer interface [polypeptide binding]; other site 167879013461 catalytic residue [active] 167879013462 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 167879013463 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 167879013464 catalytic site [active] 167879013465 G-X2-G-X-G-K; other site 167879013466 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 167879013467 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 167879013468 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 167879013469 Zn2+ binding site [ion binding]; other site 167879013470 Mg2+ binding site [ion binding]; other site 167879013471 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 167879013472 synthetase active site [active] 167879013473 NTP binding site [chemical binding]; other site 167879013474 metal binding site [ion binding]; metal-binding site 167879013475 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 167879013476 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 167879013477 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 167879013478 homotrimer interaction site [polypeptide binding]; other site 167879013479 putative active site [active] 167879013480 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 167879013481 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 167879013482 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 167879013483 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 167879013484 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 167879013485 ssDNA binding site; other site 167879013486 generic binding surface II; other site 167879013487 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 167879013488 ATP binding site [chemical binding]; other site 167879013489 putative Mg++ binding site [ion binding]; other site 167879013490 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 167879013491 nucleotide binding region [chemical binding]; other site 167879013492 ATP-binding site [chemical binding]; other site 167879013493 DNA polymerase I; Provisional; Region: PRK05755 167879013494 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 167879013495 active site 167879013496 metal binding site 1 [ion binding]; metal-binding site 167879013497 putative 5' ssDNA interaction site; other site 167879013498 metal binding site 3; metal-binding site 167879013499 metal binding site 2 [ion binding]; metal-binding site 167879013500 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 167879013501 putative DNA binding site [nucleotide binding]; other site 167879013502 putative metal binding site [ion binding]; other site 167879013503 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 167879013504 active site 167879013505 catalytic site [active] 167879013506 substrate binding site [chemical binding]; other site 167879013507 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 167879013508 active site 167879013509 DNA binding site [nucleotide binding] 167879013510 catalytic site [active] 167879013511 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 167879013512 TPR repeat; Region: TPR_11; pfam13414 167879013513 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 167879013514 binding surface 167879013515 TPR motif; other site 167879013516 glutathione reductase; Validated; Region: PRK06116 167879013517 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 167879013518 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 167879013519 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 167879013520 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 167879013521 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 167879013522 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 167879013523 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 167879013524 metal binding site [ion binding]; metal-binding site 167879013525 active site 167879013526 I-site; other site 167879013527 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 167879013528 oligopeptidase A; Provisional; Region: PRK10911 167879013529 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 167879013530 active site 167879013531 Zn binding site [ion binding]; other site 167879013532 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 167879013533 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 167879013534 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 167879013535 Substrate binding site; other site 167879013536 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 167879013537 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 167879013538 exosortase; Region: 8TM_EpsH; TIGR02602 167879013539 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 167879013540 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 167879013541 putative catalytic site [active] 167879013542 putative metal binding site [ion binding]; other site 167879013543 putative phosphate binding site [ion binding]; other site 167879013544 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 167879013545 putative catalytic site [active] 167879013546 putative metal binding site [ion binding]; other site 167879013547 putative phosphate binding site [ion binding]; other site 167879013548 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 167879013549 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 167879013550 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 167879013551 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 167879013552 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 167879013553 Ligand Binding Site [chemical binding]; other site 167879013554 Molecular Tunnel; other site 167879013555 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 167879013556 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 167879013557 putative ADP-binding pocket [chemical binding]; other site 167879013558 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 167879013559 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 167879013560 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 167879013561 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 167879013562 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 167879013563 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cd00688 167879013564 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 167879013565 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 167879013566 FemAB family; Region: FemAB; pfam02388 167879013567 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 167879013568 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 167879013569 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 167879013570 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 167879013571 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 167879013572 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 167879013573 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 167879013574 active site 167879013575 AMP binding site [chemical binding]; other site 167879013576 acyl-activating enzyme (AAE) consensus motif; other site 167879013577 CoA binding site [chemical binding]; other site 167879013578 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 167879013579 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 167879013580 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 167879013581 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 167879013582 NodB motif; other site 167879013583 active site 167879013584 catalytic site [active] 167879013585 metal binding site [ion binding]; metal-binding site 167879013586 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 167879013587 serine O-acetyltransferase; Region: cysE; TIGR01172 167879013588 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 167879013589 trimer interface [polypeptide binding]; other site 167879013590 active site 167879013591 substrate binding site [chemical binding]; other site 167879013592 CoA binding site [chemical binding]; other site 167879013593 CESA_like_1 is a member of the cellulose synthase (CESA) superfamily; Region: CESA_like_1; cd06439 167879013594 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 167879013595 DXD motif; other site 167879013596 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 167879013597 sugar transferase, PEP-CTERM system associated; Region: EpsB_2; TIGR03013 167879013598 Bacterial sugar transferase; Region: Bac_transf; pfam02397 167879013599 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 167879013600 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 167879013601 SLBB domain; Region: SLBB; pfam10531 167879013602 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 167879013603 Chain length determinant protein; Region: Wzz; pfam02706 167879013604 exopolysaccharide/PEP-CTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 167879013605 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 167879013606 uncharacterized protein, PEP-CTERM system associated; Region: pepcterm_hypo_1; TIGR03016 167879013607 uncharacterized protein, PEP-CTERM system associated; Region: pepcterm_hypo_1; TIGR03016 167879013608 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 167879013609 PEP-CTERM-box response regulator transcription factor; Region: PEP_resp_reg; TIGR02915 167879013610 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 167879013611 active site 167879013612 phosphorylation site [posttranslational modification] 167879013613 intermolecular recognition site; other site 167879013614 dimerization interface [polypeptide binding]; other site 167879013615 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 167879013616 Walker A motif; other site 167879013617 ATP binding site [chemical binding]; other site 167879013618 Walker B motif; other site 167879013619 arginine finger; other site 167879013620 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 167879013621 putative PEP-CTERM system histidine kinase; Region: PEP_his_kin; TIGR02916 167879013622 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 167879013623 ATP binding site [chemical binding]; other site 167879013624 Mg2+ binding site [ion binding]; other site 167879013625 G-X-G motif; other site 167879013626 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 167879013627 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 167879013628 HlyD family secretion protein; Region: HlyD_3; pfam13437 167879013629 putative outer membrane lipoprotein; Provisional; Region: PRK10510 167879013630 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 167879013631 ligand binding site [chemical binding]; other site 167879013632 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 167879013633 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 167879013634 Walker A/P-loop; other site 167879013635 ATP binding site [chemical binding]; other site 167879013636 Q-loop/lid; other site 167879013637 ABC transporter signature motif; other site 167879013638 Walker B; other site 167879013639 D-loop; other site 167879013640 H-loop/switch region; other site 167879013641 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 167879013642 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 167879013643 FtsX-like permease family; Region: FtsX; pfam02687 167879013644 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 167879013645 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 167879013646 FtsX-like permease family; Region: FtsX; pfam02687 167879013647 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 167879013648 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 167879013649 ParB-like nuclease domain; Region: ParBc; pfam02195 167879013650 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 167879013651 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 167879013652 P-loop; other site 167879013653 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 167879013654 Magnesium ion binding site [ion binding]; other site 167879013655 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 167879013656 Magnesium ion binding site [ion binding]; other site 167879013657 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 167879013658 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 167879013659 S-adenosylmethionine binding site [chemical binding]; other site 167879013660 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 167879013661 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 167879013662 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 167879013663 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 167879013664 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 167879013665 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 167879013666 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 167879013667 trmE is a tRNA modification GTPase; Region: trmE; cd04164 167879013668 G1 box; other site 167879013669 GTP/Mg2+ binding site [chemical binding]; other site 167879013670 Switch I region; other site 167879013671 G2 box; other site 167879013672 Switch II region; other site 167879013673 G3 box; other site 167879013674 G4 box; other site 167879013675 G5 box; other site 167879013676 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 167879013677 membrane protein insertase; Provisional; Region: PRK01318 167879013678 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 167879013679 Haemolytic domain; Region: Haemolytic; pfam01809 167879013680 Ribonuclease P; Region: Ribonuclease_P; cl00457 167879013681 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399