-- dump date 20140619_061629 -- class Genbank::misc_feature -- table misc_feature_note -- id note 577650000001 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 577650000002 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 577650000003 P-loop; other site 577650000004 Magnesium ion binding site [ion binding]; other site 577650000005 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 577650000006 Magnesium ion binding site [ion binding]; other site 577650000007 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 577650000008 ParB-like nuclease domain; Region: ParBc; pfam02195 577650000009 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 577650000010 4Fe-4S binding domain; Region: Fer4_5; pfam12801 577650000011 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 577650000012 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 577650000013 Bacterial SH3 domain; Region: SH3_3; pfam08239 577650000014 Bacterial SH3 domain; Region: SH3_4; pfam06347 577650000015 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 577650000016 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 577650000017 S-adenosylmethionine binding site [chemical binding]; other site 577650000018 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 577650000019 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 577650000020 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 577650000021 CoB--CoM heterodisulfide reductase, subunit C; Region: CoB_CoM_SS_C; TIGR03290 577650000022 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 577650000023 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 577650000024 Cysteine-rich domain; Region: CCG; pfam02754 577650000025 Cysteine-rich domain; Region: CCG; pfam02754 577650000026 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; cl00831 577650000027 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 577650000028 Coenzyme F420-reducing hydrogenase, alpha subunit [Energy production and conversion]; Region: FrhA; COG3259 577650000029 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 577650000030 Hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). These enzymes belong to the peptidase family M52. Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing...; Region: H2MP; cd00518 577650000031 nickel binding site [ion binding]; other site 577650000032 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 577650000033 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in mouse RS21-C6 protein and its homologs; Region: NTP-PPase_RS21-C6_like; cd11537 577650000034 homodimer interface [polypeptide binding]; other site 577650000035 chemical substrate binding site [chemical binding]; other site 577650000036 oligomer interface [polypeptide binding]; other site 577650000037 metal binding site [ion binding]; metal-binding site 577650000038 Phosphotransferase enzyme family; Region: APH; pfam01636 577650000039 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 577650000040 substrate binding site [chemical binding]; other site 577650000041 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 577650000042 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 577650000043 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 577650000044 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 577650000045 Preprotein translocase subunit; Region: YajC; pfam02699 577650000046 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 577650000047 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 577650000048 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 577650000049 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 577650000050 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 577650000051 Peptidase family U32; Region: Peptidase_U32; cl03113 577650000052 putative protease; Provisional; Region: PRK15452 577650000053 Peptidase family U32; Region: Peptidase_U32; pfam01136 577650000054 N-terminal Early set domain associated with the catalytic domain of isoamylase-like (also called glycogen 6-glucanohydrolase) proteins; Region: E_set_Isoamylase_like_N; cd07184 577650000055 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 577650000056 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 577650000057 trimer interface [polypeptide binding]; other site 577650000058 putative metal binding site [ion binding]; other site 577650000059 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 577650000060 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 577650000061 Walker A/P-loop; other site 577650000062 ATP binding site [chemical binding]; other site 577650000063 ABC transporter signature motif; other site 577650000064 Walker B; other site 577650000065 D-loop; other site 577650000066 H-loop/switch region; other site 577650000067 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 577650000068 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 577650000069 Walker A/P-loop; other site 577650000070 ATP binding site [chemical binding]; other site 577650000071 Q-loop/lid; other site 577650000072 ABC transporter signature motif; other site 577650000073 Walker B; other site 577650000074 D-loop; other site 577650000075 H-loop/switch region; other site 577650000076 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 577650000077 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 577650000078 active site 577650000079 catalytic tetrad [active] 577650000080 response regulator PleD; Reviewed; Region: pleD; PRK09581 577650000081 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 577650000082 active site 577650000083 phosphorylation site [posttranslational modification] 577650000084 intermolecular recognition site; other site 577650000085 dimerization interface [polypeptide binding]; other site 577650000086 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 577650000087 active site 577650000088 phosphorylation site [posttranslational modification] 577650000089 intermolecular recognition site; other site 577650000090 dimerization interface [polypeptide binding]; other site 577650000091 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 577650000092 metal binding site [ion binding]; metal-binding site 577650000093 active site 577650000094 I-site; other site 577650000095 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 577650000096 Cation efflux family; Region: Cation_efflux; pfam01545 577650000097 fumarate hydratase; Reviewed; Region: fumC; PRK00485 577650000098 Class II fumarases; Region: Fumarase_classII; cd01362 577650000099 active site 577650000100 tetramer interface [polypeptide binding]; other site 577650000101 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 577650000102 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 577650000103 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 577650000104 Walker A motif; other site 577650000105 ATP binding site [chemical binding]; other site 577650000106 Walker B motif; other site 577650000107 HDOD domain; Region: HDOD; pfam08668 577650000108 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 577650000109 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 577650000110 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 577650000111 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 577650000112 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 577650000113 Walker A motif; other site 577650000114 ATP binding site [chemical binding]; other site 577650000115 Walker B motif; other site 577650000116 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 577650000117 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 577650000118 RNA binding site [nucleotide binding]; other site 577650000119 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 577650000120 RNA binding site [nucleotide binding]; other site 577650000121 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 577650000122 RNA binding site [nucleotide binding]; other site 577650000123 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 577650000124 RNA binding site [nucleotide binding]; other site 577650000125 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 577650000126 RNA binding site [nucleotide binding]; other site 577650000127 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 577650000128 RNA binding site [nucleotide binding]; other site 577650000129 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 577650000130 IHF - DNA interface [nucleotide binding]; other site 577650000131 IHF dimer interface [polypeptide binding]; other site 577650000132 tRNA threonylcarbamoyl adenosine modification protein, Sua5/YciO/YrdC/YwlC family; Region: TIGR00057 577650000133 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 577650000134 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 577650000135 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 577650000136 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 577650000137 active site 577650000138 GMP synthase; Reviewed; Region: guaA; PRK00074 577650000139 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 577650000140 AMP/PPi binding site [chemical binding]; other site 577650000141 candidate oxyanion hole; other site 577650000142 catalytic triad [active] 577650000143 potential glutamine specificity residues [chemical binding]; other site 577650000144 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 577650000145 ATP Binding subdomain [chemical binding]; other site 577650000146 Ligand Binding sites [chemical binding]; other site 577650000147 Dimerization subdomain; other site 577650000148 LabA_like proteins; Region: LabA; cd10911 577650000149 Uncharacterized conserved protein [Function unknown]; Region: COG1432 577650000150 putative metal binding site [ion binding]; other site 577650000151 glucokinase, proteobacterial type; Region: glk; TIGR00749 577650000152 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 577650000153 nucleotide binding site [chemical binding]; other site 577650000154 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 577650000155 DEDDy 3'-5' exonuclease domain of WRN and similar proteins; Region: WRN_exo; cd06141 577650000156 catalytic site [active] 577650000157 putative active site [active] 577650000158 putative substrate binding site [chemical binding]; other site 577650000159 Nif-specific regulatory protein; Region: nifA; TIGR01817 577650000160 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 577650000161 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 577650000162 Walker A motif; other site 577650000163 ATP binding site [chemical binding]; other site 577650000164 Walker B motif; other site 577650000165 arginine finger; other site 577650000166 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 577650000167 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 577650000168 dimerization interface [polypeptide binding]; other site 577650000169 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 577650000170 dimer interface [polypeptide binding]; other site 577650000171 phosphorylation site [posttranslational modification] 577650000172 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 577650000173 ATP binding site [chemical binding]; other site 577650000174 Mg2+ binding site [ion binding]; other site 577650000175 G-X-G motif; other site 577650000176 Response regulator receiver domain; Region: Response_reg; pfam00072 577650000177 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 577650000178 active site 577650000179 phosphorylation site [posttranslational modification] 577650000180 intermolecular recognition site; other site 577650000181 dimerization interface [polypeptide binding]; other site 577650000182 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 577650000183 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 577650000184 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 577650000185 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 577650000186 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 577650000187 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 577650000188 dimer interface [polypeptide binding]; other site 577650000189 PYR/PP interface [polypeptide binding]; other site 577650000190 TPP binding site [chemical binding]; other site 577650000191 substrate binding site [chemical binding]; other site 577650000192 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Validated; Region: PRK05778 577650000193 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 577650000194 TPP-binding site [chemical binding]; other site 577650000195 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 577650000196 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 577650000197 Transglycosylase SLT domain; Region: SLT_2; pfam13406 577650000198 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 577650000199 N-acetyl-D-glucosamine binding site [chemical binding]; other site 577650000200 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 577650000201 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 577650000202 putative ADP-binding pocket [chemical binding]; other site 577650000203 Transposase domain (DUF772); Region: DUF772; pfam05598 577650000204 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 577650000205 DDE superfamily endonuclease; Region: DDE_4; cl17710 577650000206 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 577650000207 active site 577650000208 oxyanion hole [active] 577650000209 Peptidase family M48; Region: Peptidase_M48; cl12018 577650000210 SprT-like family; Region: SprT-like; pfam10263 577650000211 Protein of unknown function (DUF2786); Region: DUF2786; pfam10979 577650000212 arginine decarboxylase; Provisional; Region: PRK05354 577650000213 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 577650000214 dimer interface [polypeptide binding]; other site 577650000215 active site 577650000216 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 577650000217 catalytic residues [active] 577650000218 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 577650000219 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 577650000220 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 577650000221 PEP-CTERM motif; Region: VPEP; pfam07589 577650000222 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 577650000223 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 577650000224 dimerization interface [polypeptide binding]; other site 577650000225 active site 577650000226 metal binding site [ion binding]; metal-binding site 577650000227 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 577650000228 dsRNA binding site [nucleotide binding]; other site 577650000229 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 577650000230 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 577650000231 FeS/SAM binding site; other site 577650000232 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 577650000233 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 577650000234 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 577650000235 ABC transporter; Region: ABC_tran_2; pfam12848 577650000236 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 577650000237 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 577650000238 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 577650000239 dimer interface [polypeptide binding]; other site 577650000240 PYR/PP interface [polypeptide binding]; other site 577650000241 TPP binding site [chemical binding]; other site 577650000242 substrate binding site [chemical binding]; other site 577650000243 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 577650000244 TPP-binding site; other site 577650000245 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 577650000246 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 577650000247 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 577650000248 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 577650000249 acyl-activating enzyme (AAE) consensus motif; other site 577650000250 AMP binding site [chemical binding]; other site 577650000251 active site 577650000252 CoA binding site [chemical binding]; other site 577650000253 ACT domain-containing protein [General function prediction only]; Region: COG4747 577650000254 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 577650000255 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 577650000256 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 577650000257 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 577650000258 putative ligand binding site [chemical binding]; other site 577650000259 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 577650000260 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 577650000261 TM-ABC transporter signature motif; other site 577650000262 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 577650000263 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 577650000264 TM-ABC transporter signature motif; other site 577650000265 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 577650000266 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 577650000267 Walker A/P-loop; other site 577650000268 ATP binding site [chemical binding]; other site 577650000269 Q-loop/lid; other site 577650000270 ABC transporter signature motif; other site 577650000271 Walker B; other site 577650000272 D-loop; other site 577650000273 H-loop/switch region; other site 577650000274 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 577650000275 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 577650000276 Walker A/P-loop; other site 577650000277 ATP binding site [chemical binding]; other site 577650000278 Q-loop/lid; other site 577650000279 ABC transporter signature motif; other site 577650000280 Walker B; other site 577650000281 D-loop; other site 577650000282 H-loop/switch region; other site 577650000283 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 577650000284 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 577650000285 acyl-activating enzyme (AAE) consensus motif; other site 577650000286 AMP binding site [chemical binding]; other site 577650000287 active site 577650000288 CoA binding site [chemical binding]; other site 577650000289 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 577650000290 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 577650000291 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 577650000292 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 577650000293 Predicted permeases [General function prediction only]; Region: COG0795 577650000294 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 577650000295 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 577650000296 DHH family; Region: DHH; pfam01368 577650000297 ADP-glucose pyrophosphorylase [Carbohydrate transport and metabolism]; Region: GlgC; COG0448 577650000298 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 577650000299 ligand binding site; other site 577650000300 oligomer interface; other site 577650000301 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 577650000302 dimer interface [polypeptide binding]; other site 577650000303 N-terminal domain interface [polypeptide binding]; other site 577650000304 sulfate 1 binding site; other site 577650000305 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 577650000306 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 577650000307 ligand binding site; other site 577650000308 oligomer interface; other site 577650000309 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 577650000310 dimer interface [polypeptide binding]; other site 577650000311 N-terminal domain interface [polypeptide binding]; other site 577650000312 sulfate 1 binding site; other site 577650000313 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 577650000314 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 577650000315 active site 577650000316 DNA binding site [nucleotide binding] 577650000317 Int/Topo IB signature motif; other site 577650000318 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 577650000319 Zn2+ binding site [ion binding]; other site 577650000320 Mg2+ binding site [ion binding]; other site 577650000321 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 577650000322 AAA-like domain; Region: AAA_10; pfam12846 577650000323 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 577650000324 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 577650000325 active site 577650000326 phosphorylation site [posttranslational modification] 577650000327 intermolecular recognition site; other site 577650000328 dimerization interface [polypeptide binding]; other site 577650000329 HD domain; Region: HD_5; pfam13487 577650000330 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 577650000331 Predicted methyltransferase regulatory domain; Region: MethyTransf_Reg; pfam10119 577650000332 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 577650000333 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 577650000334 Sel1-like repeats; Region: SEL1; smart00671 577650000335 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 577650000336 Response regulator receiver domain; Region: Response_reg; pfam00072 577650000337 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 577650000338 active site 577650000339 phosphorylation site [posttranslational modification] 577650000340 intermolecular recognition site; other site 577650000341 dimerization interface [polypeptide binding]; other site 577650000342 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 577650000343 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 577650000344 metal binding site [ion binding]; metal-binding site 577650000345 active site 577650000346 I-site; other site 577650000347 Response regulator receiver domain; Region: Response_reg; pfam00072 577650000348 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 577650000349 active site 577650000350 phosphorylation site [posttranslational modification] 577650000351 intermolecular recognition site; other site 577650000352 dimerization interface [polypeptide binding]; other site 577650000353 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 577650000354 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 577650000355 substrate binding pocket [chemical binding]; other site 577650000356 membrane-bound complex binding site; other site 577650000357 hinge residues; other site 577650000358 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 577650000359 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 577650000360 putative active site [active] 577650000361 heme pocket [chemical binding]; other site 577650000362 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 577650000363 dimer interface [polypeptide binding]; other site 577650000364 phosphorylation site [posttranslational modification] 577650000365 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 577650000366 ATP binding site [chemical binding]; other site 577650000367 Mg2+ binding site [ion binding]; other site 577650000368 G-X-G motif; other site 577650000369 Response regulator receiver domain; Region: Response_reg; pfam00072 577650000370 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 577650000371 active site 577650000372 phosphorylation site [posttranslational modification] 577650000373 intermolecular recognition site; other site 577650000374 dimerization interface [polypeptide binding]; other site 577650000375 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 577650000376 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 577650000377 active site 577650000378 phosphorylation site [posttranslational modification] 577650000379 intermolecular recognition site; other site 577650000380 dimerization interface [polypeptide binding]; other site 577650000381 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 577650000382 Walker A motif; other site 577650000383 ATP binding site [chemical binding]; other site 577650000384 Walker B motif; other site 577650000385 arginine finger; other site 577650000386 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 577650000387 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 577650000388 PAS domain; Region: PAS_9; pfam13426 577650000389 putative active site [active] 577650000390 heme pocket [chemical binding]; other site 577650000391 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 577650000392 metal binding site [ion binding]; metal-binding site 577650000393 active site 577650000394 I-site; other site 577650000395 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 577650000396 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 577650000397 Response regulator receiver domain; Region: Response_reg; pfam00072 577650000398 active site 577650000399 phosphorylation site [posttranslational modification] 577650000400 intermolecular recognition site; other site 577650000401 dimerization interface [polypeptide binding]; other site 577650000402 Response regulator receiver domain; Region: Response_reg; pfam00072 577650000403 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 577650000404 active site 577650000405 phosphorylation site [posttranslational modification] 577650000406 intermolecular recognition site; other site 577650000407 dimerization interface [polypeptide binding]; other site 577650000408 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 577650000409 PAS fold; Region: PAS_3; pfam08447 577650000410 putative active site [active] 577650000411 heme pocket [chemical binding]; other site 577650000412 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 577650000413 PAS domain; Region: PAS_9; pfam13426 577650000414 putative active site [active] 577650000415 heme pocket [chemical binding]; other site 577650000416 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 577650000417 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 577650000418 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 577650000419 putative active site [active] 577650000420 heme pocket [chemical binding]; other site 577650000421 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 577650000422 dimer interface [polypeptide binding]; other site 577650000423 phosphorylation site [posttranslational modification] 577650000424 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 577650000425 ATP binding site [chemical binding]; other site 577650000426 Mg2+ binding site [ion binding]; other site 577650000427 G-X-G motif; other site 577650000428 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 577650000429 dimerization interface [polypeptide binding]; other site 577650000430 PAS domain S-box; Region: sensory_box; TIGR00229 577650000431 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 577650000432 putative active site [active] 577650000433 heme pocket [chemical binding]; other site 577650000434 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 577650000435 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 577650000436 dimer interface [polypeptide binding]; other site 577650000437 phosphorylation site [posttranslational modification] 577650000438 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 577650000439 ATP binding site [chemical binding]; other site 577650000440 Mg2+ binding site [ion binding]; other site 577650000441 G-X-G motif; other site 577650000442 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 577650000443 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 577650000444 substrate binding pocket [chemical binding]; other site 577650000445 membrane-bound complex binding site; other site 577650000446 hinge residues; other site 577650000447 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 577650000448 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 577650000449 dimer interface [polypeptide binding]; other site 577650000450 ssDNA binding site [nucleotide binding]; other site 577650000451 tetramer (dimer of dimers) interface [polypeptide binding]; other site 577650000452 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 577650000453 MPN+ (JAMM) motif; other site 577650000454 Zinc-binding site [ion binding]; other site 577650000455 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 577650000456 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 577650000457 Domain of unknown function (DUF4263); Region: DUF4263; pfam14082 577650000458 Domain of unknown function DUF87; Region: DUF87; pfam01935 577650000459 AAA-like domain; Region: AAA_10; pfam12846 577650000460 SIR2-like domain; Region: SIR2_2; pfam13289 577650000461 Transposase; Region: HTH_Tnp_1; cl17663 577650000462 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 577650000463 Uncharacterized conserved protein [Function unknown]; Region: COG3350 577650000464 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 577650000465 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 577650000466 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 577650000467 motif II; other site 577650000468 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 577650000469 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 577650000470 Hemerythrin-like domain; Region: Hr-like; cd12108 577650000471 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 577650000472 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 577650000473 N-acetyl-D-glucosamine binding site [chemical binding]; other site 577650000474 catalytic residue [active] 577650000475 tRNA synthetases class I (M); Region: tRNA-synt_1g; pfam09334 577650000476 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 577650000477 Conjugative relaxosome accessory transposon protein; Region: TraH; cl05580 577650000478 F plasmid transfer operon protein; Region: TraF; pfam13728 577650000479 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 577650000480 catalytic residues [active] 577650000481 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 577650000482 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 577650000483 Type-F conjugative transfer system pilin assembly protein; Region: TrbC_Ftype; cl09883 577650000484 TraU protein; Region: TraU; pfam06834 577650000485 Sex factor F TraW protein N terminal; Region: TraW_N; cl10149 577650000486 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 577650000487 type-IV secretion system protein TraC; Region: TraC-F-type; TIGR02746 577650000488 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 577650000489 type IV conjugative transfer system lipoprotein TraV; Region: TraV; TIGR02747 577650000490 Type IV conjugative transfer system lipoprotein (TraV); Region: TraV; pfam09676 577650000491 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 577650000492 TraK protein; Region: TraK; pfam06586 577650000493 TraE protein; Region: TraE; cl05060 577650000494 TraL protein; Region: TraL; cl06278 577650000495 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 577650000496 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 577650000497 ligand binding site [chemical binding]; other site 577650000498 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 577650000499 TrfA protein; Region: TrfA; pfam07042 577650000500 Replication initiator protein A; Region: RPA; cl17860 577650000501 Helix-turn-helix domain; Region: HTH_17; cl17695 577650000502 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 577650000503 sequence-specific DNA binding site [nucleotide binding]; other site 577650000504 salt bridge; other site 577650000505 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 577650000506 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 577650000507 TIGR02594 family protein; Region: TIGR02594 577650000508 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 577650000509 Putative phage tail protein; Region: Phage-tail_3; pfam13550 577650000510 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 577650000511 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 577650000512 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 577650000513 Tenuivirus/Phlebovirus nucleocapsid protein; Region: Tenui_N; pfam05733 577650000514 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 577650000515 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 577650000516 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 577650000517 Prophage antirepressor [Transcription]; Region: COG3617 577650000518 BRO family, N-terminal domain; Region: Bro-N; smart01040 577650000519 Helix-turn-helix domain; Region: HTH_17; cl17695 577650000520 CHC2 zinc finger; Region: zf-CHC2; cl17510 577650000521 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 577650000522 Prophage antirepressor [Transcription]; Region: COG3617 577650000523 BRO family, N-terminal domain; Region: Bro-N; smart01040 577650000524 Protein of unknown function (DUF497); Region: DUF497; pfam04365 577650000525 Domain of unknown function (DUF4415); Region: DUF4415; cl01401 577650000526 hypothetical protein; Provisional; Region: PRK14709 577650000527 D5 N terminal like; Region: D5_N; pfam08706 577650000528 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 577650000529 non-specific DNA binding site [nucleotide binding]; other site 577650000530 salt bridge; other site 577650000531 sequence-specific DNA binding site [nucleotide binding]; other site 577650000532 Staphylococcal nuclease homologues; Region: SNc; smart00318 577650000533 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 577650000534 Catalytic site; other site 577650000535 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 577650000536 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 577650000537 sequence-specific DNA binding site [nucleotide binding]; other site 577650000538 salt bridge; other site 577650000539 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 577650000540 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 577650000541 putative active site [active] 577650000542 putative NTP binding site [chemical binding]; other site 577650000543 putative nucleic acid binding site [nucleotide binding]; other site 577650000544 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 577650000545 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 577650000546 active site 577650000547 catalytic residues [active] 577650000548 DNA binding site [nucleotide binding] 577650000549 Int/Topo IB signature motif; other site 577650000550 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 577650000551 heme-binding residues [chemical binding]; other site 577650000552 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 577650000553 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 577650000554 Walker A/P-loop; other site 577650000555 ATP binding site [chemical binding]; other site 577650000556 Q-loop/lid; other site 577650000557 ABC transporter signature motif; other site 577650000558 Walker B; other site 577650000559 D-loop; other site 577650000560 H-loop/switch region; other site 577650000561 TOBE domain; Region: TOBE; cl01440 577650000562 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 577650000563 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 577650000564 dimer interface [polypeptide binding]; other site 577650000565 conserved gate region; other site 577650000566 putative PBP binding loops; other site 577650000567 ABC-ATPase subunit interface; other site 577650000568 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 577650000569 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 577650000570 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 577650000571 molybdenum-pterin binding domain; Region: Mop; TIGR00638 577650000572 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 577650000573 Domain of unknown function (DUF4424); Region: DUF4424; pfam14415 577650000574 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 577650000575 CoA binding domain; Region: CoA_binding_2; pfam13380 577650000576 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 577650000577 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 577650000578 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 577650000579 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 577650000580 ABC-ATPase subunit interface; other site 577650000581 dimer interface [polypeptide binding]; other site 577650000582 putative PBP binding regions; other site 577650000583 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 577650000584 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 577650000585 Walker A/P-loop; other site 577650000586 ATP binding site [chemical binding]; other site 577650000587 Q-loop/lid; other site 577650000588 ABC transporter signature motif; other site 577650000589 Walker B; other site 577650000590 D-loop; other site 577650000591 H-loop/switch region; other site 577650000592 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 577650000593 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 577650000594 intersubunit interface [polypeptide binding]; other site 577650000595 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 577650000596 metal binding site 2 [ion binding]; metal-binding site 577650000597 putative DNA binding helix; other site 577650000598 metal binding site 1 [ion binding]; metal-binding site 577650000599 dimer interface [polypeptide binding]; other site 577650000600 structural Zn2+ binding site [ion binding]; other site 577650000601 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 577650000602 active site 577650000603 catalytic triad [active] 577650000604 oxyanion hole [active] 577650000605 switch loop; other site 577650000606 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 577650000607 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 577650000608 Walker A/P-loop; other site 577650000609 ATP binding site [chemical binding]; other site 577650000610 Q-loop/lid; other site 577650000611 ABC transporter signature motif; other site 577650000612 Walker B; other site 577650000613 D-loop; other site 577650000614 H-loop/switch region; other site 577650000615 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 577650000616 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 577650000617 FtsX-like permease family; Region: FtsX; pfam02687 577650000618 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 577650000619 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 577650000620 non-specific DNA binding site [nucleotide binding]; other site 577650000621 salt bridge; other site 577650000622 sequence-specific DNA binding site [nucleotide binding]; other site 577650000623 Domain of unknown function (DUF955); Region: DUF955; pfam06114 577650000624 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 577650000625 HsdM N-terminal domain; Region: HsdM_N; pfam12161 577650000626 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 577650000627 S-adenosylmethionine binding site [chemical binding]; other site 577650000628 Virulence protein [General function prediction only]; Region: COG3943 577650000629 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 577650000630 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 577650000631 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 577650000632 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 577650000633 four helix bundle protein; Region: TIGR02436 577650000634 four helix bundle suffix domain; Region: 4helix_suffix; TIGR04258 577650000635 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 577650000636 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 577650000637 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 577650000638 ATP binding site [chemical binding]; other site 577650000639 putative Mg++ binding site [ion binding]; other site 577650000640 Winged helix-turn helix; Region: HTH_29; pfam13551 577650000641 Helix-turn-helix domain; Region: HTH_28; pfam13518 577650000642 Winged helix-turn helix; Region: HTH_33; pfam13592 577650000643 DDE superfamily endonuclease; Region: DDE_3; pfam13358 577650000644 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 577650000645 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 577650000646 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 577650000647 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 577650000648 active site 577650000649 DNA binding site [nucleotide binding] 577650000650 Int/Topo IB signature motif; other site 577650000651 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 577650000652 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 577650000653 Protein of unknown function (DUF4004); Region: DUF4004; pfam13171 577650000654 integrase; Provisional; Region: PRK09692 577650000655 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 577650000656 active site 577650000657 Int/Topo IB signature motif; other site 577650000658 Late embryogenesis abundant protein; Region: LEA_2; pfam03168 577650000659 AmmeMemoRadiSam system protein A; Region: AmmeMemoSam_A; TIGR04335 577650000660 AMMECR1; Region: AMMECR1; pfam01871 577650000661 biotin synthase; Region: bioB; TIGR00433 577650000662 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 577650000663 FeS/SAM binding site; other site 577650000664 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 577650000665 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 577650000666 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 577650000667 inhibitor-cofactor binding pocket; inhibition site 577650000668 pyridoxal 5'-phosphate binding site [chemical binding]; other site 577650000669 catalytic residue [active] 577650000670 Domain of unknown function DUF20; Region: UPF0118; pfam01594 577650000671 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 577650000672 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 577650000673 Citrate synthase; Region: Citrate_synt; pfam00285 577650000674 oxalacetate binding site [chemical binding]; other site 577650000675 citrylCoA binding site [chemical binding]; other site 577650000676 coenzyme A binding site [chemical binding]; other site 577650000677 catalytic triad [active] 577650000678 Cache domain; Region: Cache_2; pfam08269 577650000679 PAS domain S-box; Region: sensory_box; TIGR00229 577650000680 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 577650000681 putative active site [active] 577650000682 heme pocket [chemical binding]; other site 577650000683 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 577650000684 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 577650000685 Zn2+ binding site [ion binding]; other site 577650000686 Mg2+ binding site [ion binding]; other site 577650000687 PrkA AAA domain; Region: AAA_PrkA; smart00763 577650000688 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 577650000689 hypothetical protein; Provisional; Region: PRK05325 577650000690 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 577650000691 PrkA AAA domain; Region: AAA_PrkA; smart00763 577650000692 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 577650000693 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 577650000694 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 577650000695 substrate binding site [chemical binding]; other site 577650000696 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 577650000697 substrate binding site [chemical binding]; other site 577650000698 ligand binding site [chemical binding]; other site 577650000699 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 577650000700 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 577650000701 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 577650000702 hinge; other site 577650000703 active site 577650000704 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 577650000705 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 577650000706 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 577650000707 shikimate binding site; other site 577650000708 NAD(P) binding site [chemical binding]; other site 577650000709 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 577650000710 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 577650000711 active site 577650000712 catalytic residue [active] 577650000713 dimer interface [polypeptide binding]; other site 577650000714 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 577650000715 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740 577650000716 heterodimer interface [polypeptide binding]; other site 577650000717 active site 577650000718 FMN binding site [chemical binding]; other site 577650000719 homodimer interface [polypeptide binding]; other site 577650000720 substrate binding site [chemical binding]; other site 577650000721 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 577650000722 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 577650000723 FAD binding pocket [chemical binding]; other site 577650000724 FAD binding motif [chemical binding]; other site 577650000725 phosphate binding motif [ion binding]; other site 577650000726 beta-alpha-beta structure motif; other site 577650000727 NAD binding pocket [chemical binding]; other site 577650000728 Iron coordination center [ion binding]; other site 577650000729 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 577650000730 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 577650000731 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 577650000732 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 577650000733 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 577650000734 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 577650000735 4Fe-4S binding domain; Region: Fer4; cl02805 577650000736 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 577650000737 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 577650000738 RsbT co-antagonist protein rsbRD N-terminal domain; Region: RsbRD_N; pfam14361 577650000739 Transposase IS200 like; Region: Y1_Tnp; pfam01797 577650000740 C-terminal peptidase (prc); Region: prc; TIGR00225 577650000741 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 577650000742 protein binding site [polypeptide binding]; other site 577650000743 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 577650000744 Catalytic dyad [active] 577650000745 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 577650000746 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 577650000747 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 577650000748 CPxP motif; other site 577650000749 DsrE/DsrF-like family; Region: DrsE; pfam02635 577650000750 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 577650000751 HDOD domain; Region: HDOD; pfam08668 577650000752 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 577650000753 Zn2+ binding site [ion binding]; other site 577650000754 Mg2+ binding site [ion binding]; other site 577650000755 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase (HisA) and the cyclase subunit of imidazoleglycerol phosphate synthase (HisF). The ProFAR isomerase catalyzes the fourth step in histidine biosynthesis, an...; Region: HisA_HisF; cd04723 577650000756 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 577650000757 active site 577650000758 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 577650000759 Walker A motif; other site 577650000760 ATP binding site [chemical binding]; other site 577650000761 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 577650000762 elongation factor G; Reviewed; Region: PRK12740 577650000763 G1 box; other site 577650000764 putative GEF interaction site [polypeptide binding]; other site 577650000765 GTP/Mg2+ binding site [chemical binding]; other site 577650000766 Switch I region; other site 577650000767 G2 box; other site 577650000768 G3 box; other site 577650000769 Switch II region; other site 577650000770 G4 box; other site 577650000771 G5 box; other site 577650000772 mtEFG1_C: C-terminus of mitochondrial Elongation factor G1 (mtEFG1)-like proteins found in eukaryotes. Eukaryotic cells harbor 2 protein synthesis systems: one localized in the cytoplasm, the other in the mitochondria. Most factors regulating...; Region: mtEFG1_II_like; cd04091 577650000773 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 577650000774 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 577650000775 Nitrogen fixation protein of unknown function; Region: Nif11; pfam07862 577650000776 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 577650000777 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 577650000778 active site 577650000779 putative substrate binding pocket [chemical binding]; other site 577650000780 GTP-binding protein YchF; Reviewed; Region: PRK09601 577650000781 YchF GTPase; Region: YchF; cd01900 577650000782 G1 box; other site 577650000783 GTP/Mg2+ binding site [chemical binding]; other site 577650000784 Switch I region; other site 577650000785 G2 box; other site 577650000786 Switch II region; other site 577650000787 G3 box; other site 577650000788 G4 box; other site 577650000789 G5 box; other site 577650000790 Protein of unknown function (DUF933); Region: YchF-GTPase_C; pfam06071 577650000791 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 577650000792 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is...; Region: YhaM_OBF_like; cd04492 577650000793 generic binding surface II; other site 577650000794 generic binding surface I; other site 577650000795 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 577650000796 Zn2+ binding site [ion binding]; other site 577650000797 Mg2+ binding site [ion binding]; other site 577650000798 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 577650000799 DNA polymerase III subunit delta'; Validated; Region: PRK08485 577650000800 PSP1 C-terminal conserved region; Region: PSP1; cl00770 577650000801 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 577650000802 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 577650000803 active site 577650000804 HIGH motif; other site 577650000805 KMSKS motif; other site 577650000806 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 577650000807 tRNA binding surface [nucleotide binding]; other site 577650000808 anticodon binding site; other site 577650000809 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 577650000810 dimer interface [polypeptide binding]; other site 577650000811 putative tRNA-binding site [nucleotide binding]; other site 577650000812 YGGT family; Region: YGGT; pfam02325 577650000813 Uncharacterized conserved protein [Function unknown]; Region: COG1872 577650000814 triosephosphate isomerase; Provisional; Region: PRK14567 577650000815 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 577650000816 substrate binding site [chemical binding]; other site 577650000817 dimer interface [polypeptide binding]; other site 577650000818 catalytic triad [active] 577650000819 Peptidase family M48; Region: Peptidase_M48; cl12018 577650000820 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 577650000821 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 577650000822 conserved cys residue [active] 577650000823 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 577650000824 active site 577650000825 TPR repeat; Region: TPR_11; pfam13414 577650000826 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 577650000827 binding surface 577650000828 TPR motif; other site 577650000829 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 577650000830 TPR motif; other site 577650000831 binding surface 577650000832 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 577650000833 binding surface 577650000834 TPR motif; other site 577650000835 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 577650000836 TPR motif; other site 577650000837 binding surface 577650000838 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 577650000839 binding surface 577650000840 TPR motif; other site 577650000841 TPR repeat; Region: TPR_11; pfam13414 577650000842 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 577650000843 TPR motif; other site 577650000844 binding surface 577650000845 TPR repeat; Region: TPR_11; pfam13414 577650000846 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 577650000847 binding surface 577650000848 TPR motif; other site 577650000849 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 577650000850 SLBB domain; Region: SLBB; pfam10531 577650000851 sugar transferase, PEP-CTERM system associated; Region: EpsB_2; TIGR03013 577650000852 Bacterial sugar transferase; Region: Bac_transf; pfam02397 577650000853 Protein of unknown function (DUF3485); Region: DUF3485; pfam11984 577650000854 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 577650000855 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 577650000856 CESA_like_1 is a member of the cellulose synthase (CESA) superfamily; Region: CESA_like_1; cd06439 577650000857 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 577650000858 DXD motif; other site 577650000859 CESA_like_1 is a member of the cellulose synthase (CESA) superfamily; Region: CESA_like_1; cd06439 577650000860 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 577650000861 DXD motif; other site 577650000862 Transposase domain (DUF772); Region: DUF772; pfam05598 577650000863 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 577650000864 DDE superfamily endonuclease; Region: DDE_4; cl17710 577650000865 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 577650000866 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 577650000867 active site 577650000868 dimer interface [polypeptide binding]; other site 577650000869 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 577650000870 Ligand Binding Site [chemical binding]; other site 577650000871 Molecular Tunnel; other site 577650000872 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 577650000873 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 577650000874 trimer interface [polypeptide binding]; other site 577650000875 active site 577650000876 substrate binding site [chemical binding]; other site 577650000877 CoA binding site [chemical binding]; other site 577650000878 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 577650000879 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 577650000880 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 577650000881 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 577650000882 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 577650000883 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 577650000884 putative ADP-binding pocket [chemical binding]; other site 577650000885 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 577650000886 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 577650000887 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 577650000888 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 577650000889 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 577650000890 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 577650000891 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 577650000892 inhibitor-cofactor binding pocket; inhibition site 577650000893 pyridoxal 5'-phosphate binding site [chemical binding]; other site 577650000894 catalytic residue [active] 577650000895 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 577650000896 active site 577650000897 HI0933-like protein; Region: HI0933_like; pfam03486 577650000898 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 577650000899 ATP-grasp domain; Region: ATP-grasp_4; cl17255 577650000900 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 577650000901 Ligand binding site; other site 577650000902 Putative Catalytic site; other site 577650000903 DXD motif; other site 577650000904 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 577650000905 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 577650000906 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 577650000907 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 577650000908 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 577650000909 putative active site [active] 577650000910 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 577650000911 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 577650000912 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 577650000913 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 577650000914 catalytic residue [active] 577650000915 O-Antigen ligase; Region: Wzy_C; cl04850 577650000916 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 577650000917 Acyltransferase family; Region: Acyl_transf_3; pfam01757 577650000918 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 577650000919 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 577650000920 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 577650000921 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 577650000922 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 577650000923 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 577650000924 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 577650000925 active site 577650000926 AMP binding site [chemical binding]; other site 577650000927 acyl-activating enzyme (AAE) consensus motif; other site 577650000928 CoA binding site [chemical binding]; other site 577650000929 Glycosyltransferase like family 2; Region: Glyco_tranf_2_2; pfam10111 577650000930 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 577650000931 active site 577650000932 Repeats in polycystic kidney disease 1 (PKD1) and other proteins; Region: PKD; smart00089 577650000933 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 577650000934 FOG: PKD repeat [General function prediction only]; Region: COG3291 577650000935 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 577650000936 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 577650000937 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 577650000938 PEP-CTERM protein-sorting domain; Region: PEP_exosort; TIGR02595 577650000939 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 577650000940 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 577650000941 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated; Region: PRK05537 577650000942 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 577650000943 active site 577650000944 nucleotide binding site [chemical binding]; other site 577650000945 HIGH motif; other site 577650000946 KMSKS motif; other site 577650000947 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 577650000948 ligand-binding site [chemical binding]; other site 577650000949 VanZ like family; Region: VanZ; cl01971 577650000950 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 577650000951 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 577650000952 DNA binding site [nucleotide binding] 577650000953 catalytic residue [active] 577650000954 H2TH interface [polypeptide binding]; other site 577650000955 putative catalytic residues [active] 577650000956 turnover-facilitating residue; other site 577650000957 intercalation triad [nucleotide binding]; other site 577650000958 8OG recognition residue [nucleotide binding]; other site 577650000959 putative reading head residues; other site 577650000960 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 577650000961 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 577650000962 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 577650000963 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 577650000964 Colicin V production protein; Region: Colicin_V; pfam02674 577650000965 phosphomannomutase CpsG; Provisional; Region: PRK15414 577650000966 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 577650000967 active site 577650000968 substrate binding site [chemical binding]; other site 577650000969 metal binding site [ion binding]; metal-binding site 577650000970 PilZ domain; Region: PilZ; pfam07238 577650000971 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 577650000972 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 577650000973 Nitrogen regulatory protein P-II; Region: P-II; smart00938 577650000974 [Protein-PII] uridylyltransferase; Region: UTase_glnD; TIGR01693 577650000975 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 577650000976 metal binding triad; other site 577650000977 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 577650000978 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cl17503 577650000979 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 577650000980 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 577650000981 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 577650000982 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 577650000983 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 577650000984 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 577650000985 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 577650000986 non-specific DNA binding site [nucleotide binding]; other site 577650000987 salt bridge; other site 577650000988 sequence-specific DNA binding site [nucleotide binding]; other site 577650000989 FOG: CBS domain [General function prediction only]; Region: COG0517 577650000990 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce...; Region: CBS_pair_ACT_assoc; cd04584 577650000991 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 577650000992 FtsH Extracellular; Region: FtsH_ext; pfam06480 577650000993 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 577650000994 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 577650000995 Walker A motif; other site 577650000996 ATP binding site [chemical binding]; other site 577650000997 Walker B motif; other site 577650000998 arginine finger; other site 577650000999 Peptidase family M41; Region: Peptidase_M41; pfam01434 577650001000 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 577650001001 propionate/acetate kinase; Provisional; Region: PRK12379 577650001002 phosphate acetyltransferase; Reviewed; Region: PRK05632 577650001003 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 577650001004 DRTGG domain; Region: DRTGG; pfam07085 577650001005 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 577650001006 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 577650001007 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 577650001008 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 577650001009 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 577650001010 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 577650001011 Cysteine-rich domain; Region: CCG; pfam02754 577650001012 Cysteine-rich domain; Region: CCG; pfam02754 577650001013 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 577650001014 L-lactate permease; Region: Lactate_perm; cl00701 577650001015 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 577650001016 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 577650001017 L-lactate permease; Region: Lactate_perm; cl00701 577650001018 Transcriptional regulators [Transcription]; Region: FadR; COG2186 577650001019 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 577650001020 DNA-binding site [nucleotide binding]; DNA binding site 577650001021 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 577650001022 FAD binding domain; Region: FAD_binding_4; pfam01565 577650001023 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 577650001024 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 577650001025 Cysteine-rich domain; Region: CCG; pfam02754 577650001026 Cysteine-rich domain; Region: CCG; pfam02754 577650001027 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 577650001028 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_1; cd02150 577650001029 putative FMN binding site [chemical binding]; other site 577650001030 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 577650001031 fumarate hydratase; Provisional; Region: PRK15389 577650001032 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 577650001033 Fumarase C-terminus; Region: Fumerase_C; pfam05683 577650001034 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 577650001035 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 577650001036 FeS/SAM binding site; other site 577650001037 HemN C-terminal domain; Region: HemN_C; pfam06969 577650001038 hypothetical protein; Reviewed; Region: PRK00024 577650001039 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 577650001040 MPN+ (JAMM) motif; other site 577650001041 Zinc-binding site [ion binding]; other site 577650001042 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 577650001043 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 577650001044 GatB domain; Region: GatB_Yqey; smart00845 577650001045 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 577650001046 TPR motif; other site 577650001047 binding surface 577650001048 Tetratricopeptide repeat; Region: TPR_12; pfam13424 577650001049 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 577650001050 binding surface 577650001051 TPR motif; other site 577650001052 Tetratricopeptide repeat; Region: TPR_12; pfam13424 577650001053 Tetratricopeptide repeat; Region: TPR_12; pfam13424 577650001054 Putative exonuclease, RdgC; Region: RdgC; cl01122 577650001055 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 577650001056 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 577650001057 active site 577650001058 catalytic residues [active] 577650001059 DNA binding site [nucleotide binding] 577650001060 Int/Topo IB signature motif; other site 577650001061 Zonular occludens toxin (Zot); Region: Zot; cl17485 577650001062 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 577650001063 non-specific DNA binding site [nucleotide binding]; other site 577650001064 salt bridge; other site 577650001065 sequence-specific DNA binding site [nucleotide binding]; other site 577650001066 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 577650001067 Flagellin N-methylase; Region: FliB; pfam03692 577650001068 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 577650001069 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 577650001070 phosphopeptide binding site; other site 577650001071 GAF domain; Region: GAF_2; pfam13185 577650001072 GAF domain; Region: GAF_3; pfam13492 577650001073 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 577650001074 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 577650001075 Walker A motif; other site 577650001076 ATP binding site [chemical binding]; other site 577650001077 Walker B motif; other site 577650001078 arginine finger; other site 577650001079 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 577650001080 VWFA-related Acidobacterial domain; Region: acidobact_VWFA; TIGR03436 577650001081 von Willebrand factor type A domain; Region: VWA_2; pfam13519 577650001082 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 577650001083 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 577650001084 phosphopeptide binding site; other site 577650001085 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 577650001086 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 577650001087 phosphopeptide binding site; other site 577650001088 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 577650001089 Eye pigment and drug resistance transporter subfamily G of the ATP-binding cassette superfamily; Region: ABCG_EPDR; cd03213 577650001090 Walker A/P-loop; other site 577650001091 ATP binding site [chemical binding]; other site 577650001092 Q-loop/lid; other site 577650001093 ABC transporter signature motif; other site 577650001094 Walker B; other site 577650001095 D-loop; other site 577650001096 H-loop/switch region; other site 577650001097 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 577650001098 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 577650001099 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 577650001100 Catalytic domain of Protein Kinases; Region: PKc; cd00180 577650001101 active site 577650001102 ATP binding site [chemical binding]; other site 577650001103 substrate binding site [chemical binding]; other site 577650001104 activation loop (A-loop); other site 577650001105 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 577650001106 active site 577650001107 oxalate/formate antiporter; Region: oxa_formateAnti; TIGR04259 577650001108 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 577650001109 putative UV damage endonuclease; Provisional; Region: uvsE; PRK02308 577650001110 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 577650001111 phosphate acetyltransferase; Reviewed; Region: PRK05632 577650001112 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 577650001113 DRTGG domain; Region: DRTGG; pfam07085 577650001114 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 577650001115 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 577650001116 Protein of unknown function (DUF523); Region: DUF523; pfam04463 577650001117 Uncharacterized conserved protein [Function unknown]; Region: COG3272 577650001118 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 577650001119 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 577650001120 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 577650001121 CO dehydrogenase/acetyl-CoA synthase gamma subunit (corrinoid Fe-S protein) [Energy production and conversion]; Region: CdhE; COG1456 577650001122 Radical SAM superfamily; Region: Radical_SAM; pfam04055 577650001123 acetolactate synthase catalytic subunit; Validated; Region: PRK08155 577650001124 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 577650001125 PYR/PP interface [polypeptide binding]; other site 577650001126 dimer interface [polypeptide binding]; other site 577650001127 TPP binding site [chemical binding]; other site 577650001128 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 577650001129 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 577650001130 TPP-binding site [chemical binding]; other site 577650001131 dimer interface [polypeptide binding]; other site 577650001132 Acetolactate synthase, small (regulatory) subunit [Amino acid transport and metabolism]; Region: IlvH; COG0440 577650001133 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 577650001134 putative valine binding site [chemical binding]; other site 577650001135 dimer interface [polypeptide binding]; other site 577650001136 aminotransferase; Validated; Region: PRK08175 577650001137 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 577650001138 pyridoxal 5'-phosphate binding site [chemical binding]; other site 577650001139 homodimer interface [polypeptide binding]; other site 577650001140 catalytic residue [active] 577650001141 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 577650001142 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 577650001143 Walker A/P-loop; other site 577650001144 ATP binding site [chemical binding]; other site 577650001145 Q-loop/lid; other site 577650001146 ABC transporter signature motif; other site 577650001147 Walker B; other site 577650001148 D-loop; other site 577650001149 H-loop/switch region; other site 577650001150 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 577650001151 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 577650001152 Walker A/P-loop; other site 577650001153 ATP binding site [chemical binding]; other site 577650001154 Q-loop/lid; other site 577650001155 ABC transporter signature motif; other site 577650001156 Walker B; other site 577650001157 D-loop; other site 577650001158 H-loop/switch region; other site 577650001159 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 577650001160 DsrE/DsrF-like family; Region: DrsE; cl00672 577650001161 Hemerythrin; Region: Hemerythrin; cd12107 577650001162 Fe binding site [ion binding]; other site 577650001163 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 577650001164 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 577650001165 GIY-YIG motif/motif A; other site 577650001166 active site 577650001167 catalytic site [active] 577650001168 putative DNA binding site [nucleotide binding]; other site 577650001169 metal binding site [ion binding]; metal-binding site 577650001170 UvrB/uvrC motif; Region: UVR; pfam02151 577650001171 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 577650001172 Helix-hairpin-helix motif; Region: HHH; pfam00633 577650001173 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_3; cd07820 577650001174 putative hydrophobic ligand binding site [chemical binding]; other site 577650001175 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 577650001176 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 577650001177 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 577650001178 Domain of unknown function DUF20; Region: UPF0118; pfam01594 577650001179 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 577650001180 Mechanosensitive ion channel; Region: MS_channel; pfam00924 577650001181 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 577650001182 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 577650001183 N-acetyl-D-glucosamine binding site [chemical binding]; other site 577650001184 catalytic residue [active] 577650001185 S-formylglutathione hydrolase; Region: PLN02442 577650001186 Putative esterase; Region: Esterase; pfam00756 577650001187 Transthyretin-like family; Region: DUF290; pfam01060 577650001188 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 577650001189 metal ion-dependent adhesion site (MIDAS); other site 577650001190 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 577650001191 AAA domain; Region: AAA_30; pfam13604 577650001192 ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]; Region: RecD; COG0507 577650001193 Family description; Region: UvrD_C_2; pfam13538 577650001194 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 577650001195 ATP binding site [chemical binding]; other site 577650001196 substrate binding site [chemical binding]; other site 577650001197 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 577650001198 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 577650001199 CPxP motif; other site 577650001200 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 577650001201 Transcriptional regulator [Transcription]; Region: LysR; COG0583 577650001202 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 577650001203 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 577650001204 putative dimerization interface [polypeptide binding]; other site 577650001205 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 577650001206 GAF domain; Region: GAF; pfam01590 577650001207 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 577650001208 Walker A motif; other site 577650001209 ATP binding site [chemical binding]; other site 577650001210 Walker B motif; other site 577650001211 arginine finger; other site 577650001212 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 577650001213 Cupin domain; Region: Cupin_2; cl17218 577650001214 Domain of unknown function (DUF1858); Region: DUF1858; pfam08984 577650001215 Uncharacterized conserved protein [Function unknown]; Region: COG2461 577650001216 Family of unknown function (DUF438); Region: DUF438; pfam04282 577650001217 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 577650001218 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 577650001219 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 577650001220 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 577650001221 ATP binding site [chemical binding]; other site 577650001222 Mg2+ binding site [ion binding]; other site 577650001223 G-X-G motif; other site 577650001224 FemAB family; Region: FemAB; pfam02388 577650001225 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 577650001226 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 577650001227 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 577650001228 dimer interface [polypeptide binding]; other site 577650001229 phosphorylation site [posttranslational modification] 577650001230 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 577650001231 ATP binding site [chemical binding]; other site 577650001232 Mg2+ binding site [ion binding]; other site 577650001233 G-X-G motif; other site 577650001234 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 577650001235 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 577650001236 active site 577650001237 phosphorylation site [posttranslational modification] 577650001238 intermolecular recognition site; other site 577650001239 dimerization interface [polypeptide binding]; other site 577650001240 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 577650001241 Walker A motif; other site 577650001242 ATP binding site [chemical binding]; other site 577650001243 Walker B motif; other site 577650001244 arginine finger; other site 577650001245 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 577650001246 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 577650001247 active site 577650001248 DNA binding site [nucleotide binding] 577650001249 Int/Topo IB signature motif; other site 577650001250 Helix-turn-helix domain; Region: HTH_17; pfam12728 577650001251 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 577650001252 active site 577650001253 metal binding site [ion binding]; metal-binding site 577650001254 interdomain interaction site; other site 577650001255 Protein of unknown function (DUF3631); Region: DUF3631; pfam12307 577650001256 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 577650001257 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 577650001258 homodimer interface [polypeptide binding]; other site 577650001259 oligonucleotide binding site [chemical binding]; other site 577650001260 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 577650001261 Radical SAM superfamily; Region: Radical_SAM; pfam04055 577650001262 FeS/SAM binding site; other site 577650001263 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 577650001264 Organic solvent tolerance protein; Region: OstA_C; pfam04453 577650001265 MltA specific insert domain; Region: MltA; smart00925 577650001266 3D domain; Region: 3D; pfam06725 577650001267 Response regulator receiver domain; Region: Response_reg; pfam00072 577650001268 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 577650001269 active site 577650001270 phosphorylation site [posttranslational modification] 577650001271 intermolecular recognition site; other site 577650001272 dimerization interface [polypeptide binding]; other site 577650001273 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 577650001274 FOG: CBS domain [General function prediction only]; Region: COG0517 577650001275 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 577650001276 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 577650001277 transmembrane helices; other site 577650001278 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 577650001279 NHAD transporter family protein; Provisional; Region: PLN00137 577650001280 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 577650001281 Cupin domain; Region: Cupin_2; cl17218 577650001282 von Willebrand factor; Region: vWF_A; pfam12450 577650001283 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 577650001284 VWA subgroup: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_subgroup; cd01465 577650001285 metal ion-dependent adhesion site (MIDAS); other site 577650001286 Domain of unknown function (DUF3520); Region: DUF3520; pfam12034 577650001287 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 577650001288 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 577650001289 phosphoribosylformylglycinamidine synthase; Provisional; Region: PLN03206 577650001290 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 577650001291 dimerization interface [polypeptide binding]; other site 577650001292 ATP binding site [chemical binding]; other site 577650001293 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 577650001294 dimerization interface [polypeptide binding]; other site 577650001295 ATP binding site [chemical binding]; other site 577650001296 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 577650001297 putative active site [active] 577650001298 catalytic triad [active] 577650001299 YcfA-like protein; Region: YcfA; pfam07927 577650001300 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 577650001301 hopanoid biosynthesis associated radical SAM protein HpnJ; Region: HpnJ; TIGR03471 577650001302 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 577650001303 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 577650001304 G1 box; other site 577650001305 putative GEF interaction site [polypeptide binding]; other site 577650001306 GTP/Mg2+ binding site [chemical binding]; other site 577650001307 Switch I region; other site 577650001308 G2 box; other site 577650001309 G3 box; other site 577650001310 Switch II region; other site 577650001311 G4 box; other site 577650001312 G5 box; other site 577650001313 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 577650001314 Na/Pi-cotransporter; Region: NaPi_cotrn_rel; TIGR00704 577650001315 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 577650001316 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 577650001317 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 577650001318 dimerization interface [polypeptide binding]; other site 577650001319 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 577650001320 dimer interface [polypeptide binding]; other site 577650001321 phosphorylation site [posttranslational modification] 577650001322 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 577650001323 ATP binding site [chemical binding]; other site 577650001324 Mg2+ binding site [ion binding]; other site 577650001325 G-X-G motif; other site 577650001326 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 577650001327 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 577650001328 active site 577650001329 phosphorylation site [posttranslational modification] 577650001330 intermolecular recognition site; other site 577650001331 dimerization interface [polypeptide binding]; other site 577650001332 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 577650001333 DNA binding site [nucleotide binding] 577650001334 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 577650001335 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 577650001336 S-adenosylmethionine binding site [chemical binding]; other site 577650001337 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 577650001338 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 577650001339 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 577650001340 active site 577650001341 phosphorylation site [posttranslational modification] 577650001342 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 577650001343 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 577650001344 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 577650001345 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 577650001346 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 577650001347 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 577650001348 Walker A/P-loop; other site 577650001349 ATP binding site [chemical binding]; other site 577650001350 Q-loop/lid; other site 577650001351 ABC transporter signature motif; other site 577650001352 Walker B; other site 577650001353 D-loop; other site 577650001354 H-loop/switch region; other site 577650001355 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 577650001356 OstA-like protein; Region: OstA; pfam03968 577650001357 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 577650001358 feedback inhibition sensing region; other site 577650001359 homohexameric interface [polypeptide binding]; other site 577650001360 nucleotide binding site [chemical binding]; other site 577650001361 N-acetyl-L-glutamate binding site [chemical binding]; other site 577650001362 acetylornithine aminotransferase; Provisional; Region: PRK02627 577650001363 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 577650001364 inhibitor-cofactor binding pocket; inhibition site 577650001365 pyridoxal 5'-phosphate binding site [chemical binding]; other site 577650001366 catalytic residue [active] 577650001367 Predicted membrane protein [Function unknown]; Region: COG1971 577650001368 Domain of unknown function DUF; Region: DUF204; pfam02659 577650001369 Domain of unknown function DUF; Region: DUF204; pfam02659 577650001370 ornithine carbamoyltransferase; Provisional; Region: PRK00779 577650001371 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 577650001372 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 577650001373 argininosuccinate synthase; Provisional; Region: PRK13820 577650001374 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 577650001375 ANP binding site [chemical binding]; other site 577650001376 Substrate Binding Site II [chemical binding]; other site 577650001377 Substrate Binding Site I [chemical binding]; other site 577650001378 argininosuccinate lyase; Provisional; Region: PRK00855 577650001379 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 577650001380 active sites [active] 577650001381 tetramer interface [polypeptide binding]; other site 577650001382 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 577650001383 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 577650001384 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 577650001385 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 577650001386 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 577650001387 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 577650001388 dimer interface [polypeptide binding]; other site 577650001389 active site 577650001390 catalytic residue [active] 577650001391 dihydrodipicolinate reductase; Provisional; Region: PRK00048 577650001392 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 577650001393 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 577650001394 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 577650001395 catalytic center binding site [active] 577650001396 ATP binding site [chemical binding]; other site 577650001397 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 577650001398 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 577650001399 active site 577650001400 intersubunit interactions; other site 577650001401 catalytic residue [active] 577650001402 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 577650001403 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 577650001404 N-acetyl-D-glucosamine binding site [chemical binding]; other site 577650001405 catalytic residue [active] 577650001406 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 577650001407 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_4; cd03795 577650001408 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 577650001409 putative ADP-binding pocket [chemical binding]; other site 577650001410 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 577650001411 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 577650001412 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 577650001413 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 577650001414 NADP-binding site; other site 577650001415 homotetramer interface [polypeptide binding]; other site 577650001416 substrate binding site [chemical binding]; other site 577650001417 homodimer interface [polypeptide binding]; other site 577650001418 active site 577650001419 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 577650001420 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 577650001421 NADP-binding site; other site 577650001422 homotetramer interface [polypeptide binding]; other site 577650001423 substrate binding site [chemical binding]; other site 577650001424 homodimer interface [polypeptide binding]; other site 577650001425 active site 577650001426 Transposase domain (DUF772); Region: DUF772; pfam05598 577650001427 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 577650001428 DDE superfamily endonuclease; Region: DDE_4; cl17710 577650001429 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 577650001430 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 577650001431 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 577650001432 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 577650001433 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 577650001434 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 577650001435 Methyltransferase domain; Region: Methyltransf_23; pfam13489 577650001436 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 577650001437 S-adenosylmethionine binding site [chemical binding]; other site 577650001438 Methyltransferase domain; Region: Methyltransf_24; pfam13578 577650001439 Methyltransferase domain; Region: Methyltransf_31; pfam13847 577650001440 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 577650001441 S-adenosylmethionine binding site [chemical binding]; other site 577650001442 phosphomannomutase CpsG; Provisional; Region: PRK15414 577650001443 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 577650001444 active site 577650001445 substrate binding site [chemical binding]; other site 577650001446 metal binding site [ion binding]; metal-binding site 577650001447 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 577650001448 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 577650001449 Substrate binding site; other site 577650001450 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 577650001451 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 577650001452 Transposase; Region: HTH_Tnp_1; cl17663 577650001453 putative transposase OrfB; Reviewed; Region: PHA02517 577650001454 Integrase core domain; Region: rve; pfam00665 577650001455 Integrase core domain; Region: rve_3; pfam13683 577650001456 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 577650001457 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 577650001458 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 577650001459 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 577650001460 Walker A/P-loop; other site 577650001461 ATP binding site [chemical binding]; other site 577650001462 Q-loop/lid; other site 577650001463 ABC transporter signature motif; other site 577650001464 Walker B; other site 577650001465 D-loop; other site 577650001466 H-loop/switch region; other site 577650001467 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 577650001468 binding surface 577650001469 TPR motif; other site 577650001470 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 577650001471 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 577650001472 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 577650001473 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 577650001474 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 577650001475 substrate binding site; other site 577650001476 tetramer interface; other site 577650001477 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 577650001478 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 577650001479 NADP binding site [chemical binding]; other site 577650001480 active site 577650001481 putative substrate binding site [chemical binding]; other site 577650001482 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 577650001483 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 577650001484 NAD binding site [chemical binding]; other site 577650001485 substrate binding site [chemical binding]; other site 577650001486 homodimer interface [polypeptide binding]; other site 577650001487 active site 577650001488 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 577650001489 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 577650001490 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 577650001491 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 577650001492 NAD(P) binding site [chemical binding]; other site 577650001493 homodimer interface [polypeptide binding]; other site 577650001494 substrate binding site [chemical binding]; other site 577650001495 active site 577650001496 Predicted acetyltransferase [General function prediction only]; Region: COG2388 577650001497 cardiolipin synthase 2; Provisional; Region: PRK11263 577650001498 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 577650001499 putative active site [active] 577650001500 catalytic site [active] 577650001501 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 577650001502 putative active site [active] 577650001503 catalytic site [active] 577650001504 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 577650001505 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 577650001506 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 577650001507 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 577650001508 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 577650001509 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 577650001510 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 577650001511 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 577650001512 catalytic residues [active] 577650001513 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 577650001514 active site 577650001515 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 577650001516 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 577650001517 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 577650001518 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 577650001519 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 577650001520 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 577650001521 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 577650001522 Rrf2 family protein; Region: rrf2_super; TIGR00738 577650001523 Transcriptional regulator; Region: Rrf2; pfam02082 577650001524 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 577650001525 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 577650001526 PAS domain; Region: PAS_9; pfam13426 577650001527 putative active site [active] 577650001528 heme pocket [chemical binding]; other site 577650001529 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 577650001530 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 577650001531 metal binding site [ion binding]; metal-binding site 577650001532 active site 577650001533 I-site; other site 577650001534 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 577650001535 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 577650001536 Peptidase M15; Region: Peptidase_M15_3; cl01194 577650001537 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 577650001538 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 577650001539 active site 577650001540 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 577650001541 isocitrate dehydrogenase; Validated; Region: PRK07362 577650001542 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 577650001543 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 577650001544 putative acyl-acceptor binding pocket; other site 577650001545 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 577650001546 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 577650001547 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 577650001548 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 577650001549 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 577650001550 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 577650001551 Surface antigen; Region: Bac_surface_Ag; pfam01103 577650001552 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 577650001553 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 577650001554 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 577650001555 ATP binding site [chemical binding]; other site 577650001556 putative Mg++ binding site [ion binding]; other site 577650001557 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 577650001558 nucleotide binding region [chemical binding]; other site 577650001559 ATP-binding site [chemical binding]; other site 577650001560 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 577650001561 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 577650001562 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 577650001563 PAS fold; Region: PAS; pfam00989 577650001564 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 577650001565 putative active site [active] 577650001566 heme pocket [chemical binding]; other site 577650001567 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 577650001568 Zn2+ binding site [ion binding]; other site 577650001569 Mg2+ binding site [ion binding]; other site 577650001570 PAS domain; Region: PAS_9; pfam13426 577650001571 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 577650001572 putative active site [active] 577650001573 heme pocket [chemical binding]; other site 577650001574 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 577650001575 Zn2+ binding site [ion binding]; other site 577650001576 Mg2+ binding site [ion binding]; other site 577650001577 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 577650001578 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 577650001579 ligand binding site [chemical binding]; other site 577650001580 flexible hinge region; other site 577650001581 Putative methyltransferase; Region: Methyltransf_20; pfam12147 577650001582 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 577650001583 S-adenosylmethionine binding site [chemical binding]; other site 577650001584 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 577650001585 Peptidase C1A subfamily (MEROPS database nomenclature); composed of cysteine peptidases (CPs) similar to papain, including the mammalian CPs (cathepsins B, C, F, H, L, K, O, S, V, X and W). Papain is an endopeptidase with specific substrate preferences; Region: Peptidase_C1A; cd02248 577650001586 active site 577650001587 S2 subsite; other site 577650001588 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 577650001589 Autotransporter beta-domain; Region: Autotransporter; pfam03797 577650001590 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 577650001591 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 577650001592 homotrimer interface [polypeptide binding]; other site 577650001593 Walker A motif; other site 577650001594 GTP binding site [chemical binding]; other site 577650001595 Walker B motif; other site 577650001596 cobalamin synthase; Reviewed; Region: cobS; PRK00235 577650001597 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 577650001598 catalytic core [active] 577650001599 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 577650001600 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 577650001601 putative dimer interface [polypeptide binding]; other site 577650001602 active site pocket [active] 577650001603 putative cataytic base [active] 577650001604 Haemolysin-III related; Region: HlyIII; cl03831 577650001605 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 577650001606 NAD(P)H:flavin oxidoreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_2; cd02151 577650001607 putative FMN binding site [chemical binding]; other site 577650001608 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 577650001609 active site 577650001610 dimer interface [polypeptide binding]; other site 577650001611 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 577650001612 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 577650001613 putative active site [active] 577650001614 PhoH-like protein; Region: PhoH; pfam02562 577650001615 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 577650001616 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 577650001617 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 577650001618 active site 577650001619 16S rRNA methyltransferase B; Provisional; Region: PRK14902 577650001620 NusB family; Region: NusB; pfam01029 577650001621 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 577650001622 S-adenosylmethionine binding site [chemical binding]; other site 577650001623 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 577650001624 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 577650001625 substrate binding pocket [chemical binding]; other site 577650001626 membrane-bound complex binding site; other site 577650001627 hinge residues; other site 577650001628 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 577650001629 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 577650001630 putative active site [active] 577650001631 heme pocket [chemical binding]; other site 577650001632 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 577650001633 dimer interface [polypeptide binding]; other site 577650001634 phosphorylation site [posttranslational modification] 577650001635 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 577650001636 ATP binding site [chemical binding]; other site 577650001637 Mg2+ binding site [ion binding]; other site 577650001638 G-X-G motif; other site 577650001639 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 577650001640 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 577650001641 active site 577650001642 phosphorylation site [posttranslational modification] 577650001643 intermolecular recognition site; other site 577650001644 dimerization interface [polypeptide binding]; other site 577650001645 PilZ domain; Region: PilZ; pfam07238 577650001646 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 577650001647 Zn2+ binding site [ion binding]; other site 577650001648 Mg2+ binding site [ion binding]; other site 577650001649 Protein of unknown function (DUF504); Region: DUF504; pfam04457 577650001650 Protein of unknown function (DUF452); Region: DUF452; cl01062 577650001651 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 577650001652 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 577650001653 substrate-cofactor binding pocket; other site 577650001654 pyridoxal 5'-phosphate binding site [chemical binding]; other site 577650001655 catalytic residue [active] 577650001656 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 577650001657 6-phosphofructokinase; Provisional; Region: PRK03202 577650001658 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 577650001659 active site 577650001660 ADP/pyrophosphate binding site [chemical binding]; other site 577650001661 dimerization interface [polypeptide binding]; other site 577650001662 allosteric effector site; other site 577650001663 fructose-1,6-bisphosphate binding site; other site 577650001664 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 577650001665 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 577650001666 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 577650001667 dimer interface [polypeptide binding]; other site 577650001668 conserved gate region; other site 577650001669 putative PBP binding loops; other site 577650001670 ABC-ATPase subunit interface; other site 577650001671 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 577650001672 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 577650001673 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 577650001674 dimer interface [polypeptide binding]; other site 577650001675 conserved gate region; other site 577650001676 putative PBP binding loops; other site 577650001677 ABC-ATPase subunit interface; other site 577650001678 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 577650001679 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 577650001680 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 577650001681 Walker A/P-loop; other site 577650001682 ATP binding site [chemical binding]; other site 577650001683 Q-loop/lid; other site 577650001684 ABC transporter signature motif; other site 577650001685 Walker B; other site 577650001686 D-loop; other site 577650001687 H-loop/switch region; other site 577650001688 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 577650001689 dimerization interface [polypeptide binding]; other site 577650001690 PAS domain S-box; Region: sensory_box; TIGR00229 577650001691 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 577650001692 putative active site [active] 577650001693 heme pocket [chemical binding]; other site 577650001694 PAS domain S-box; Region: sensory_box; TIGR00229 577650001695 PAS fold; Region: PAS_4; pfam08448 577650001696 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 577650001697 dimer interface [polypeptide binding]; other site 577650001698 phosphorylation site [posttranslational modification] 577650001699 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 577650001700 ATP binding site [chemical binding]; other site 577650001701 Mg2+ binding site [ion binding]; other site 577650001702 G-X-G motif; other site 577650001703 Response regulator receiver domain; Region: Response_reg; pfam00072 577650001704 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 577650001705 active site 577650001706 phosphorylation site [posttranslational modification] 577650001707 intermolecular recognition site; other site 577650001708 dimerization interface [polypeptide binding]; other site 577650001709 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 577650001710 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 577650001711 active site 577650001712 catalytic residues [active] 577650001713 metal binding site [ion binding]; metal-binding site 577650001714 PAS domain S-box; Region: sensory_box; TIGR00229 577650001715 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 577650001716 putative active site [active] 577650001717 heme pocket [chemical binding]; other site 577650001718 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 577650001719 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 577650001720 putative active site [active] 577650001721 heme pocket [chemical binding]; other site 577650001722 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 577650001723 dimer interface [polypeptide binding]; other site 577650001724 phosphorylation site [posttranslational modification] 577650001725 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 577650001726 ATP binding site [chemical binding]; other site 577650001727 Mg2+ binding site [ion binding]; other site 577650001728 G-X-G motif; other site 577650001729 PAS fold; Region: PAS; pfam00989 577650001730 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 577650001731 putative active site [active] 577650001732 heme pocket [chemical binding]; other site 577650001733 Response regulator receiver domain; Region: Response_reg; pfam00072 577650001734 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 577650001735 active site 577650001736 phosphorylation site [posttranslational modification] 577650001737 intermolecular recognition site; other site 577650001738 dimerization interface [polypeptide binding]; other site 577650001739 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 577650001740 PAS domain; Region: PAS_9; pfam13426 577650001741 putative active site [active] 577650001742 heme pocket [chemical binding]; other site 577650001743 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 577650001744 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 577650001745 Walker A motif; other site 577650001746 ATP binding site [chemical binding]; other site 577650001747 Walker B motif; other site 577650001748 arginine finger; other site 577650001749 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 577650001750 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 577650001751 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 577650001752 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 577650001753 Walker A motif; other site 577650001754 ATP binding site [chemical binding]; other site 577650001755 Walker B motif; other site 577650001756 arginine finger; other site 577650001757 Peptidase family M41; Region: Peptidase_M41; pfam01434 577650001758 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 577650001759 heme-binding residues [chemical binding]; other site 577650001760 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 577650001761 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 577650001762 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 577650001763 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 577650001764 tungsten cofactor oxidoreducase radical SAM maturase; Region: W_rSAM_matur; TIGR04317 577650001765 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 577650001766 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 577650001767 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 577650001768 CoenzymeA binding site [chemical binding]; other site 577650001769 subunit interaction site [polypeptide binding]; other site 577650001770 PHB binding site; other site 577650001771 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 577650001772 homodimer interaction site [polypeptide binding]; other site 577650001773 cofactor binding site; other site 577650001774 Domain of unknown function (DUF4407); Region: DUF4407; pfam14362 577650001775 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 577650001776 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 577650001777 4Fe-4S binding domain; Region: Fer4; pfam00037 577650001778 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 577650001779 Nitroreductase family. Members of this family utilize FMN as a cofactor. This family is involved in the reduction of flavin or nitroaromatic compounds by using NAD(P)H as electron donor in a obligatory two-electron transfer. Nitrogenase is homodimer; Region: NADH_nitroreductase; cd02143 577650001780 putative FMN binding site [chemical binding]; other site 577650001781 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 577650001782 DnaA N-terminal domain; Region: DnaA_N; pfam11638 577650001783 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 577650001784 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 577650001785 DnaA box-binding interface [nucleotide binding]; other site 577650001786 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 577650001787 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 577650001788 heat shock protein 90; Provisional; Region: PRK05218 577650001789 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 577650001790 ATP binding site [chemical binding]; other site 577650001791 Mg2+ binding site [ion binding]; other site 577650001792 G-X-G motif; other site 577650001793 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 577650001794 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 577650001795 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 577650001796 S-adenosylmethionine binding site [chemical binding]; other site 577650001797 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 577650001798 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 577650001799 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 577650001800 Walker A motif; other site 577650001801 ATP binding site [chemical binding]; other site 577650001802 Walker B motif; other site 577650001803 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 577650001804 SmpB-tmRNA interface; other site 577650001805 Protein of unknown function (DUF429); Region: DUF429; pfam04250 577650001806 Transposase IS200 like; Region: Y1_Tnp; pfam01797 577650001807 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 577650001808 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 577650001809 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 577650001810 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 577650001811 HsdM N-terminal domain; Region: HsdM_N; pfam12161 577650001812 Methyltransferase domain; Region: Methyltransf_26; pfam13659 577650001813 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 577650001814 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 577650001815 ATP binding site [chemical binding]; other site 577650001816 putative Mg++ binding site [ion binding]; other site 577650001817 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 577650001818 nucleotide binding region [chemical binding]; other site 577650001819 ATP-binding site [chemical binding]; other site 577650001820 enoyl-CoA hydratase; Provisional; Region: PRK09245 577650001821 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 577650001822 substrate binding site [chemical binding]; other site 577650001823 oxyanion hole (OAH) forming residues; other site 577650001824 trimer interface [polypeptide binding]; other site 577650001825 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 577650001826 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 577650001827 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 577650001828 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 577650001829 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 577650001830 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 577650001831 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 577650001832 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 577650001833 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 577650001834 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 577650001835 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 577650001836 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 577650001837 type II secretion system protein D; Region: type_II_gspD; TIGR02517 577650001838 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 577650001839 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 577650001840 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 577650001841 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 577650001842 Tetratricopeptide repeat; Region: TPR_12; pfam13424 577650001843 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 577650001844 binding surface 577650001845 TPR motif; other site 577650001846 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 577650001847 type II secretion system protein E; Region: type_II_gspE; TIGR02533 577650001848 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 577650001849 Walker A motif; other site 577650001850 ATP binding site [chemical binding]; other site 577650001851 Walker B motif; other site 577650001852 type II secretion system protein F; Region: GspF; TIGR02120 577650001853 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 577650001854 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 577650001855 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 577650001856 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 577650001857 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 577650001858 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 577650001859 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 577650001860 Walker A/P-loop; other site 577650001861 ATP binding site [chemical binding]; other site 577650001862 Q-loop/lid; other site 577650001863 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 577650001864 ABC transporter signature motif; other site 577650001865 Walker B; other site 577650001866 D-loop; other site 577650001867 H-loop/switch region; other site 577650001868 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 577650001869 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 577650001870 Ligand Binding Site [chemical binding]; other site 577650001871 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 577650001872 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 577650001873 active site 577650001874 NTP binding site [chemical binding]; other site 577650001875 metal binding triad [ion binding]; metal-binding site 577650001876 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 577650001877 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 577650001878 Zn2+ binding site [ion binding]; other site 577650001879 Mg2+ binding site [ion binding]; other site 577650001880 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 577650001881 FtsJ-like methyltransferase; Region: FtsJ; cl17430 577650001882 hypothetical protein; Validated; Region: PRK00110 577650001883 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 577650001884 active site 577650001885 putative DNA-binding cleft [nucleotide binding]; other site 577650001886 dimer interface [polypeptide binding]; other site 577650001887 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 577650001888 RuvA N terminal domain; Region: RuvA_N; pfam01330 577650001889 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 577650001890 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 577650001891 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 577650001892 Walker A motif; other site 577650001893 ATP binding site [chemical binding]; other site 577650001894 Walker B motif; other site 577650001895 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 577650001896 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 577650001897 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 577650001898 C-terminal peptidase (prc); Region: prc; TIGR00225 577650001899 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 577650001900 protein binding site [polypeptide binding]; other site 577650001901 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 577650001902 Catalytic dyad [active] 577650001903 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 577650001904 metal ion-dependent adhesion site (MIDAS); other site 577650001905 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 577650001906 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 577650001907 Walker A/P-loop; other site 577650001908 ATP binding site [chemical binding]; other site 577650001909 Q-loop/lid; other site 577650001910 ABC transporter signature motif; other site 577650001911 Walker B; other site 577650001912 D-loop; other site 577650001913 H-loop/switch region; other site 577650001914 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 577650001915 Sel1-like repeats; Region: SEL1; smart00671 577650001916 Sel1-like repeats; Region: SEL1; smart00671 577650001917 cell division protein MraZ; Reviewed; Region: PRK00326 577650001918 MraZ protein; Region: MraZ; pfam02381 577650001919 MraZ protein; Region: MraZ; pfam02381 577650001920 MraW methylase family; Region: Methyltransf_5; cl17771 577650001921 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 577650001922 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 577650001923 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 577650001924 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 577650001925 putative bifunctional UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase/UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase; Provisional; Region: PRK11929 577650001926 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 577650001927 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 577650001928 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 577650001929 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 577650001930 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 577650001931 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 577650001932 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 577650001933 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 577650001934 Mg++ binding site [ion binding]; other site 577650001935 putative catalytic motif [active] 577650001936 putative substrate binding site [chemical binding]; other site 577650001937 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 577650001938 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 577650001939 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 577650001940 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 577650001941 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 577650001942 active site 577650001943 homodimer interface [polypeptide binding]; other site 577650001944 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 577650001945 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 577650001946 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 577650001947 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 577650001948 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 577650001949 FAD binding domain; Region: FAD_binding_4; pfam01565 577650001950 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 577650001951 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 577650001952 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 577650001953 cell division protein FtsA; Region: ftsA; TIGR01174 577650001954 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 577650001955 nucleotide binding site [chemical binding]; other site 577650001956 Cell division protein FtsA; Region: FtsA; pfam14450 577650001957 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 577650001958 cell division protein FtsZ; Validated; Region: PRK09330 577650001959 nucleotide binding site [chemical binding]; other site 577650001960 SulA interaction site; other site 577650001961 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 577650001962 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 577650001963 FeS/SAM binding site; other site 577650001964 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 577650001965 dimer interface [polypeptide binding]; other site 577650001966 phosphorylation site [posttranslational modification] 577650001967 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 577650001968 ATP binding site [chemical binding]; other site 577650001969 Mg2+ binding site [ion binding]; other site 577650001970 G-X-G motif; other site 577650001971 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 577650001972 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 577650001973 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 577650001974 Walker A/P-loop; other site 577650001975 ATP binding site [chemical binding]; other site 577650001976 Q-loop/lid; other site 577650001977 ABC transporter signature motif; other site 577650001978 Walker B; other site 577650001979 D-loop; other site 577650001980 H-loop/switch region; other site 577650001981 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 577650001982 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 577650001983 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 577650001984 putative active site [active] 577650001985 heme pocket [chemical binding]; other site 577650001986 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 577650001987 dimer interface [polypeptide binding]; other site 577650001988 phosphorylation site [posttranslational modification] 577650001989 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 577650001990 ATP binding site [chemical binding]; other site 577650001991 Mg2+ binding site [ion binding]; other site 577650001992 G-X-G motif; other site 577650001993 Response regulator receiver domain; Region: Response_reg; pfam00072 577650001994 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 577650001995 active site 577650001996 phosphorylation site [posttranslational modification] 577650001997 intermolecular recognition site; other site 577650001998 dimerization interface [polypeptide binding]; other site 577650001999 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 577650002000 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 577650002001 putative substrate translocation pore; other site 577650002002 quinolinate synthetase; Provisional; Region: PRK09375 577650002003 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 577650002004 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 577650002005 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 577650002006 Sulfate transporter family; Region: Sulfate_transp; pfam00916 577650002007 Sulfate transporter family; Region: Sulfate_transp; pfam00916 577650002008 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 577650002009 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 577650002010 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 577650002011 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 577650002012 uncharacterized radical SAM protein YgiQ; Region: SAM_YgiQ; TIGR03904 577650002013 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 577650002014 flavoprotein, HI0933 family; Region: TIGR00275 577650002015 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 577650002016 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 577650002017 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 577650002018 NAD(P) binding site [chemical binding]; other site 577650002019 active site 577650002020 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 577650002021 putative active site [active] 577650002022 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 577650002023 active site 577650002024 substrate binding site [chemical binding]; other site 577650002025 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 577650002026 FMN binding site [chemical binding]; other site 577650002027 putative catalytic residues [active] 577650002028 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 577650002029 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 577650002030 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 577650002031 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; cl00163 577650002032 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 577650002033 active site 577650002034 DNA polymerase IV; Validated; Region: PRK02406 577650002035 DNA binding site [nucleotide binding] 577650002036 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 577650002037 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 577650002038 NAD binding site [chemical binding]; other site 577650002039 substrate binding site [chemical binding]; other site 577650002040 homodimer interface [polypeptide binding]; other site 577650002041 active site 577650002042 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 577650002043 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 577650002044 Tetramer interface [polypeptide binding]; other site 577650002045 active site 577650002046 FMN-binding site [chemical binding]; other site 577650002047 Response regulator receiver domain; Region: Response_reg; pfam00072 577650002048 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 577650002049 active site 577650002050 phosphorylation site [posttranslational modification] 577650002051 intermolecular recognition site; other site 577650002052 dimerization interface [polypeptide binding]; other site 577650002053 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 577650002054 cyclase homology domain; Region: CHD; cd07302 577650002055 nucleotidyl binding site; other site 577650002056 metal binding site [ion binding]; metal-binding site 577650002057 dimer interface [polypeptide binding]; other site 577650002058 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 577650002059 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 577650002060 G1 box; other site 577650002061 GTP/Mg2+ binding site [chemical binding]; other site 577650002062 G2 box; other site 577650002063 Switch I region; other site 577650002064 G3 box; other site 577650002065 Switch II region; other site 577650002066 G4 box; other site 577650002067 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 577650002068 G5 box; other site 577650002069 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 577650002070 B12 binding site [chemical binding]; other site 577650002071 Radical SAM superfamily; Region: Radical_SAM; pfam04055 577650002072 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 577650002073 homodimer interface [polypeptide binding]; other site 577650002074 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 577650002075 active site pocket [active] 577650002076 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 577650002077 catalytic site [active] 577650002078 putative active site [active] 577650002079 putative substrate binding site [chemical binding]; other site 577650002080 dimer interface [polypeptide binding]; other site 577650002081 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 577650002082 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 577650002083 intersubunit interface [polypeptide binding]; other site 577650002084 active site 577650002085 zinc binding site [ion binding]; other site 577650002086 Na+ binding site [ion binding]; other site 577650002087 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 577650002088 homotrimer interaction site [polypeptide binding]; other site 577650002089 putative active site [active] 577650002090 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 577650002091 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 577650002092 substrate binding site [chemical binding]; other site 577650002093 oxyanion hole (OAH) forming residues; other site 577650002094 trimer interface [polypeptide binding]; other site 577650002095 putative acyltransferase; Provisional; Region: PRK05790 577650002096 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 577650002097 dimer interface [polypeptide binding]; other site 577650002098 active site 577650002099 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 577650002100 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 577650002101 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 577650002102 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 577650002103 CoenzymeA binding site [chemical binding]; other site 577650002104 subunit interaction site [polypeptide binding]; other site 577650002105 PHB binding site; other site 577650002106 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 577650002107 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 577650002108 FAD binding site [chemical binding]; other site 577650002109 homotetramer interface [polypeptide binding]; other site 577650002110 substrate binding pocket [chemical binding]; other site 577650002111 catalytic base [active] 577650002112 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 577650002113 4Fe-4S binding domain; Region: Fer4; cl02805 577650002114 Cysteine-rich domain; Region: CCG; pfam02754 577650002115 Cysteine-rich domain; Region: CCG; pfam02754 577650002116 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 577650002117 Ligand binding site [chemical binding]; other site 577650002118 Electron transfer flavoprotein domain; Region: ETF; pfam01012 577650002119 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 577650002120 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 577650002121 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 577650002122 Tim44-like domain; Region: Tim44; pfam04280 577650002123 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 577650002124 HflK protein; Region: hflK; TIGR01933 577650002125 HflC protein; Region: hflC; TIGR01932 577650002126 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 577650002127 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 577650002128 dimer interface [polypeptide binding]; other site 577650002129 Citrate synthase; Region: Citrate_synt; pfam00285 577650002130 active site 577650002131 citrylCoA binding site [chemical binding]; other site 577650002132 NADH binding [chemical binding]; other site 577650002133 cationic pore residues; other site 577650002134 oxalacetate/citrate binding site [chemical binding]; other site 577650002135 coenzyme A binding site [chemical binding]; other site 577650002136 catalytic triad [active] 577650002137 Uncharacterized conserved protein [Function unknown]; Region: COG5316 577650002138 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 577650002139 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 577650002140 DNA polymerase I; Provisional; Region: PRK05755 577650002141 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 577650002142 active site 577650002143 metal binding site 1 [ion binding]; metal-binding site 577650002144 putative 5' ssDNA interaction site; other site 577650002145 metal binding site 3; metal-binding site 577650002146 metal binding site 2 [ion binding]; metal-binding site 577650002147 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 577650002148 putative DNA binding site [nucleotide binding]; other site 577650002149 putative metal binding site [ion binding]; other site 577650002150 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 577650002151 active site 577650002152 catalytic site [active] 577650002153 substrate binding site [chemical binding]; other site 577650002154 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 577650002155 active site 577650002156 DNA binding site [nucleotide binding] 577650002157 catalytic site [active] 577650002158 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; cl00250 577650002159 30S subunit binding site; other site 577650002160 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 577650002161 RNA-binding motif; other site 577650002162 DNA-binding site [nucleotide binding]; DNA binding site 577650002163 Ferrochelatase; Region: Ferrochelatase; pfam00762 577650002164 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 577650002165 C-terminal domain interface [polypeptide binding]; other site 577650002166 active site 577650002167 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 577650002168 active site 577650002169 N-terminal domain interface [polypeptide binding]; other site 577650002170 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 577650002171 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 577650002172 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 577650002173 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 577650002174 rod shape-determining protein MreC; Provisional; Region: PRK13922 577650002175 rod shape-determining protein MreC; Region: MreC; pfam04085 577650002176 rod shape-determining protein MreB; Provisional; Region: PRK13927 577650002177 MreB and similar proteins; Region: MreB_like; cd10225 577650002178 nucleotide binding site [chemical binding]; other site 577650002179 Mg binding site [ion binding]; other site 577650002180 putative protofilament interaction site [polypeptide binding]; other site 577650002181 RodZ interaction site [polypeptide binding]; other site 577650002182 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 577650002183 Protein of unknown function (DUF3631); Region: DUF3631; pfam12307 577650002184 HicB family; Region: HicB; pfam05534 577650002185 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 577650002186 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 577650002187 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 577650002188 PAS fold; Region: PAS_3; pfam08447 577650002189 putative active site [active] 577650002190 heme pocket [chemical binding]; other site 577650002191 PAS fold; Region: PAS_3; pfam08447 577650002192 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 577650002193 heme pocket [chemical binding]; other site 577650002194 putative active site [active] 577650002195 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 577650002196 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 577650002197 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 577650002198 putative active site [active] 577650002199 heme pocket [chemical binding]; other site 577650002200 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 577650002201 putative active site [active] 577650002202 heme pocket [chemical binding]; other site 577650002203 PAS domain S-box; Region: sensory_box; TIGR00229 577650002204 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 577650002205 putative active site [active] 577650002206 heme pocket [chemical binding]; other site 577650002207 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 577650002208 PAS domain; Region: PAS_9; pfam13426 577650002209 putative active site [active] 577650002210 heme pocket [chemical binding]; other site 577650002211 PAS domain S-box; Region: sensory_box; TIGR00229 577650002212 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 577650002213 putative active site [active] 577650002214 heme pocket [chemical binding]; other site 577650002215 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 577650002216 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 577650002217 putative active site [active] 577650002218 heme pocket [chemical binding]; other site 577650002219 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 577650002220 dimer interface [polypeptide binding]; other site 577650002221 phosphorylation site [posttranslational modification] 577650002222 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 577650002223 ATP binding site [chemical binding]; other site 577650002224 Mg2+ binding site [ion binding]; other site 577650002225 G-X-G motif; other site 577650002226 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 577650002227 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 577650002228 active site 577650002229 Riboflavin kinase; Region: Flavokinase; pfam01687 577650002230 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 577650002231 TPR repeat; Region: TPR_11; pfam13414 577650002232 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 577650002233 TPR motif; other site 577650002234 binding surface 577650002235 TPR repeat; Region: TPR_11; pfam13414 577650002236 TPR repeat; Region: TPR_11; pfam13414 577650002237 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 577650002238 binding surface 577650002239 TPR motif; other site 577650002240 TPR repeat; Region: TPR_11; pfam13414 577650002241 Tetratricopeptide repeat; Region: TPR_12; pfam13424 577650002242 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 577650002243 TPR motif; other site 577650002244 binding surface 577650002245 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 577650002246 Lumazine binding domain; Region: Lum_binding; pfam00677 577650002247 Lumazine binding domain; Region: Lum_binding; pfam00677 577650002248 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 577650002249 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 577650002250 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 577650002251 dimerization interface [polypeptide binding]; other site 577650002252 active site 577650002253 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 577650002254 homopentamer interface [polypeptide binding]; other site 577650002255 active site 577650002256 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 577650002257 putative RNA binding site [nucleotide binding]; other site 577650002258 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 577650002259 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 577650002260 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 577650002261 adenosine phosphosulphate reductase, beta subunit; Region: aprB; TIGR02060 577650002262 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 577650002263 Adenosine-5'-phosphosulfate reductase beta subunit; Region: APS-reductase_C; pfam12139 577650002264 adenylylsulfate reductase subunit alpha; Validated; Region: PRK06854 577650002265 L-aspartate oxidase; Provisional; Region: PRK06175 577650002266 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 577650002267 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 577650002268 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 577650002269 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 577650002270 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 577650002271 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 577650002272 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 577650002273 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 577650002274 tricarballylate utilization protein B; Provisional; Region: PRK15033 577650002275 elongation factor Tu; Reviewed; Region: PRK00049 577650002276 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 577650002277 G1 box; other site 577650002278 GEF interaction site [polypeptide binding]; other site 577650002279 GTP/Mg2+ binding site [chemical binding]; other site 577650002280 Switch I region; other site 577650002281 G2 box; other site 577650002282 G3 box; other site 577650002283 Switch II region; other site 577650002284 G4 box; other site 577650002285 G5 box; other site 577650002286 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 577650002287 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 577650002288 Antibiotic Binding Site [chemical binding]; other site 577650002289 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 577650002290 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 577650002291 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 577650002292 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 577650002293 putative homodimer interface [polypeptide binding]; other site 577650002294 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 577650002295 heterodimer interface [polypeptide binding]; other site 577650002296 homodimer interface [polypeptide binding]; other site 577650002297 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 577650002298 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 577650002299 23S rRNA interface [nucleotide binding]; other site 577650002300 L7/L12 interface [polypeptide binding]; other site 577650002301 putative thiostrepton binding site; other site 577650002302 L25 interface [polypeptide binding]; other site 577650002303 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 577650002304 mRNA/rRNA interface [nucleotide binding]; other site 577650002305 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 577650002306 23S rRNA interface [nucleotide binding]; other site 577650002307 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 577650002308 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 577650002309 L11 interface [polypeptide binding]; other site 577650002310 putative EF-Tu interaction site [polypeptide binding]; other site 577650002311 putative EF-G interaction site [polypeptide binding]; other site 577650002312 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 577650002313 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 577650002314 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 577650002315 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 577650002316 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 577650002317 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 577650002318 RPB3 interaction site [polypeptide binding]; other site 577650002319 RPB1 interaction site [polypeptide binding]; other site 577650002320 RPB11 interaction site [polypeptide binding]; other site 577650002321 RPB10 interaction site [polypeptide binding]; other site 577650002322 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 577650002323 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 577650002324 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 577650002325 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 577650002326 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 577650002327 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 577650002328 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 577650002329 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 577650002330 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 577650002331 DNA binding site [nucleotide binding] 577650002332 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 577650002333 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 577650002334 S17 interaction site [polypeptide binding]; other site 577650002335 S8 interaction site; other site 577650002336 16S rRNA interaction site [nucleotide binding]; other site 577650002337 streptomycin interaction site [chemical binding]; other site 577650002338 23S rRNA interaction site [nucleotide binding]; other site 577650002339 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 577650002340 30S ribosomal protein S7; Validated; Region: PRK05302 577650002341 elongation factor G; Reviewed; Region: PRK00007 577650002342 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 577650002343 G1 box; other site 577650002344 putative GEF interaction site [polypeptide binding]; other site 577650002345 GTP/Mg2+ binding site [chemical binding]; other site 577650002346 Switch I region; other site 577650002347 G2 box; other site 577650002348 G3 box; other site 577650002349 Switch II region; other site 577650002350 G4 box; other site 577650002351 G5 box; other site 577650002352 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 577650002353 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; cd01680 577650002354 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 577650002355 elongation factor Tu; Reviewed; Region: PRK00049 577650002356 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 577650002357 G1 box; other site 577650002358 GEF interaction site [polypeptide binding]; other site 577650002359 GTP/Mg2+ binding site [chemical binding]; other site 577650002360 Switch I region; other site 577650002361 G2 box; other site 577650002362 G3 box; other site 577650002363 Switch II region; other site 577650002364 G4 box; other site 577650002365 G5 box; other site 577650002366 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 577650002367 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 577650002368 Antibiotic Binding Site [chemical binding]; other site 577650002369 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 577650002370 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 577650002371 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 577650002372 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 577650002373 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 577650002374 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 577650002375 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 577650002376 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 577650002377 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 577650002378 putative translocon binding site; other site 577650002379 protein-rRNA interface [nucleotide binding]; other site 577650002380 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 577650002381 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 577650002382 G-X-X-G motif; other site 577650002383 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 577650002384 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 577650002385 23S rRNA interface [nucleotide binding]; other site 577650002386 5S rRNA interface [nucleotide binding]; other site 577650002387 putative antibiotic binding site [chemical binding]; other site 577650002388 L25 interface [polypeptide binding]; other site 577650002389 L27 interface [polypeptide binding]; other site 577650002390 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 577650002391 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 577650002392 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 577650002393 RNA binding site [nucleotide binding]; other site 577650002394 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 577650002395 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 577650002396 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 577650002397 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 577650002398 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 577650002399 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 577650002400 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 577650002401 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 577650002402 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 577650002403 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 577650002404 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 577650002405 23S rRNA binding site [nucleotide binding]; other site 577650002406 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 577650002407 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 577650002408 SecY translocase; Region: SecY; pfam00344 577650002409 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 577650002410 active site 577650002411 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 577650002412 rRNA binding site [nucleotide binding]; other site 577650002413 predicted 30S ribosome binding site; other site 577650002414 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 577650002415 30S ribosomal protein S13; Region: bact_S13; TIGR03631 577650002416 30S ribosomal protein S11; Validated; Region: PRK05309 577650002417 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 577650002418 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 577650002419 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 577650002420 RNA binding surface [nucleotide binding]; other site 577650002421 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 577650002422 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 577650002423 alphaNTD homodimer interface [polypeptide binding]; other site 577650002424 alphaNTD - beta interaction site [polypeptide binding]; other site 577650002425 alphaNTD - beta' interaction site [polypeptide binding]; other site 577650002426 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 577650002427 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 577650002428 Flagellin N-methylase; Region: FliB; pfam03692 577650002429 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 577650002430 rRNA interaction site [nucleotide binding]; other site 577650002431 S8 interaction site; other site 577650002432 putative laminin-1 binding site; other site 577650002433 elongation factor Ts; Reviewed; Region: tsf; PRK12332 577650002434 UBA/TS-N domain; Region: UBA; pfam00627 577650002435 Elongation factor TS; Region: EF_TS; pfam00889 577650002436 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 577650002437 putative nucleotide binding site [chemical binding]; other site 577650002438 uridine monophosphate binding site [chemical binding]; other site 577650002439 homohexameric interface [polypeptide binding]; other site 577650002440 ribosome recycling factor; Reviewed; Region: frr; PRK00083 577650002441 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 577650002442 hinge region; other site 577650002443 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 577650002444 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 577650002445 catalytic residue [active] 577650002446 putative FPP diphosphate binding site; other site 577650002447 putative FPP binding hydrophobic cleft; other site 577650002448 dimer interface [polypeptide binding]; other site 577650002449 putative IPP diphosphate binding site; other site 577650002450 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 577650002451 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 577650002452 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 577650002453 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 577650002454 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 577650002455 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 577650002456 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 577650002457 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 577650002458 active site 577650002459 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 577650002460 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 577650002461 putative substrate binding region [chemical binding]; other site 577650002462 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 577650002463 Glycoprotease family; Region: Peptidase_M22; pfam00814 577650002464 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 577650002465 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 577650002466 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 577650002467 prolyl-tRNA synthetase; Provisional; Region: PRK09194 577650002468 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 577650002469 dimer interface [polypeptide binding]; other site 577650002470 motif 1; other site 577650002471 active site 577650002472 motif 2; other site 577650002473 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 577650002474 putative deacylase active site [active] 577650002475 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 577650002476 active site 577650002477 motif 3; other site 577650002478 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 577650002479 anticodon binding site; other site 577650002480 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 577650002481 HD domain; Region: HD_4; pfam13328 577650002482 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 577650002483 synthetase active site [active] 577650002484 NTP binding site [chemical binding]; other site 577650002485 metal binding site [ion binding]; metal-binding site 577650002486 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 577650002487 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 577650002488 Smr domain; Region: Smr; pfam01713 577650002489 ribonuclease PH; Reviewed; Region: rph; PRK00173 577650002490 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 577650002491 oligomer interface [polypeptide binding]; other site 577650002492 RNA binding site [nucleotide binding]; other site 577650002493 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 577650002494 nudix motif; other site 577650002495 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 577650002496 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 577650002497 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 577650002498 Methyltransferase domain; Region: Methyltransf_26; pfam13659 577650002499 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 577650002500 phosphorylation site [posttranslational modification] 577650002501 dimer interface [polypeptide binding]; other site 577650002502 Response regulator receiver domain; Region: Response_reg; pfam00072 577650002503 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 577650002504 active site 577650002505 phosphorylation site [posttranslational modification] 577650002506 intermolecular recognition site; other site 577650002507 dimerization interface [polypeptide binding]; other site 577650002508 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 577650002509 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 577650002510 active site 577650002511 phosphorylation site [posttranslational modification] 577650002512 intermolecular recognition site; other site 577650002513 dimerization interface [polypeptide binding]; other site 577650002514 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 577650002515 Walker A motif; other site 577650002516 ATP binding site [chemical binding]; other site 577650002517 Walker B motif; other site 577650002518 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 577650002519 RNA polymerase beta'' subunit; Reviewed; Region: rpoC2; CHL00117 577650002520 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 577650002521 CheW-like domain; Region: CheW; pfam01584 577650002522 Two component signalling adaptor domain; Region: CheW; smart00260 577650002523 PAS fold; Region: PAS_4; pfam08448 577650002524 PAS domain; Region: PAS; smart00091 577650002525 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 577650002526 PAS domain; Region: PAS_9; pfam13426 577650002527 putative active site [active] 577650002528 heme pocket [chemical binding]; other site 577650002529 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 577650002530 PAS domain; Region: PAS_9; pfam13426 577650002531 putative active site [active] 577650002532 heme pocket [chemical binding]; other site 577650002533 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 577650002534 PAS domain; Region: PAS_9; pfam13426 577650002535 putative active site [active] 577650002536 heme pocket [chemical binding]; other site 577650002537 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 577650002538 PAS domain; Region: PAS_9; pfam13426 577650002539 putative active site [active] 577650002540 heme pocket [chemical binding]; other site 577650002541 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 577650002542 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 577650002543 dimer interface [polypeptide binding]; other site 577650002544 putative CheW interface [polypeptide binding]; other site 577650002545 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 577650002546 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 577650002547 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 577650002548 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII; cd09992 577650002549 active site 577650002550 Zn binding site [ion binding]; other site 577650002551 Flagellin N-methylase; Region: FliB; pfam03692 577650002552 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH4; cd08188 577650002553 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 577650002554 putative active site [active] 577650002555 metal binding site [ion binding]; metal-binding site 577650002556 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 577650002557 histidine kinase; Provisional; Region: PRK13557 577650002558 putative active site [active] 577650002559 heme pocket [chemical binding]; other site 577650002560 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 577650002561 dimer interface [polypeptide binding]; other site 577650002562 phosphorylation site [posttranslational modification] 577650002563 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 577650002564 ATP binding site [chemical binding]; other site 577650002565 Mg2+ binding site [ion binding]; other site 577650002566 G-X-G motif; other site 577650002567 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 577650002568 active site 577650002569 phosphorylation site [posttranslational modification] 577650002570 intermolecular recognition site; other site 577650002571 dimerization interface [polypeptide binding]; other site 577650002572 Predicted metalloprotease [General function prediction only]; Region: COG2321 577650002573 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 577650002574 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 577650002575 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 577650002576 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 577650002577 HlyD family secretion protein; Region: HlyD_3; pfam13437 577650002578 Outer membrane efflux protein; Region: OEP; pfam02321 577650002579 Outer membrane efflux protein; Region: OEP; pfam02321 577650002580 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 577650002581 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 577650002582 Beta-Casp domain; Region: Beta-Casp; smart01027 577650002583 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 577650002584 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 577650002585 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 577650002586 ligand binding site [chemical binding]; other site 577650002587 PAS domain; Region: PAS; smart00091 577650002588 PAS fold; Region: PAS_4; pfam08448 577650002589 putative active site [active] 577650002590 heme pocket [chemical binding]; other site 577650002591 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 577650002592 Zn2+ binding site [ion binding]; other site 577650002593 Mg2+ binding site [ion binding]; other site 577650002594 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 577650002595 substrate binding site [chemical binding]; other site 577650002596 active site 577650002597 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 577650002598 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 577650002599 FeS/SAM binding site; other site 577650002600 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 577650002601 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 577650002602 Ligand Binding Site [chemical binding]; other site 577650002603 Putative glucose-1-phosphate thymidylyltransferase, C-terminal Left-handed parallel beta-Helix (LbH) domain: Proteins in this family show simlarity to glucose-1-phosphate adenylyltransferases in that they contain N-terminal catalytic domains that...; Region: LbH_G1P_TT_C_like; cd05636 577650002604 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 577650002605 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 577650002606 Walker A motif; other site 577650002607 ATP binding site [chemical binding]; other site 577650002608 Walker B motif; other site 577650002609 arginine finger; other site 577650002610 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 577650002611 YceG-like family; Region: YceG; pfam02618 577650002612 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 577650002613 dimerization interface [polypeptide binding]; other site 577650002614 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 577650002615 DNA-binding site [nucleotide binding]; DNA binding site 577650002616 RNA-binding motif; other site 577650002617 NAD synthetase; Provisional; Region: PRK13981 577650002618 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 577650002619 multimer interface [polypeptide binding]; other site 577650002620 active site 577650002621 catalytic triad [active] 577650002622 protein interface 1 [polypeptide binding]; other site 577650002623 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 577650002624 homodimer interface [polypeptide binding]; other site 577650002625 NAD binding pocket [chemical binding]; other site 577650002626 ATP binding pocket [chemical binding]; other site 577650002627 Mg binding site [ion binding]; other site 577650002628 active-site loop [active] 577650002629 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 577650002630 aspartate aminotransferase; Provisional; Region: PRK05764 577650002631 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 577650002632 pyridoxal 5'-phosphate binding site [chemical binding]; other site 577650002633 homodimer interface [polypeptide binding]; other site 577650002634 catalytic residue [active] 577650002635 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 577650002636 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 577650002637 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 577650002638 putative dimerization interface [polypeptide binding]; other site 577650002639 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 577650002640 NADH dehydrogenase subunit B; Validated; Region: PRK06411 577650002641 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 577650002642 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 577650002643 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 577650002644 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 577650002645 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 577650002646 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 577650002647 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 577650002648 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 577650002649 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 577650002650 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 577650002651 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 577650002652 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 577650002653 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12668 577650002654 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 577650002655 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 577650002656 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 577650002657 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 577650002658 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 577650002659 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 577650002660 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 577650002661 dimer interface [polypeptide binding]; other site 577650002662 active site 577650002663 glycine-pyridoxal phosphate binding site [chemical binding]; other site 577650002664 folate binding site [chemical binding]; other site 577650002665 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 577650002666 putative active site pocket [active] 577650002667 dimerization interface [polypeptide binding]; other site 577650002668 putative catalytic residue [active] 577650002669 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; pfam01985 577650002670 Uncharacterized homolog of PrgY (pheromone shutdown protein) [Function unknown]; Region: COG1916 577650002671 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 577650002672 atypical (a) SDRs, subgroup 2; Region: SDR_a2; cd05245 577650002673 putative NAD(P) binding site [chemical binding]; other site 577650002674 putative active site [active] 577650002675 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 577650002676 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 577650002677 N-acetyl-D-glucosamine binding site [chemical binding]; other site 577650002678 catalytic residue [active] 577650002679 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 577650002680 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 577650002681 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 577650002682 Transglycosylase; Region: Transgly; pfam00912 577650002683 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 577650002684 DNA directed RNA polymerase, 7 kDa subunit; Region: DNA_RNApol_7kD; cl00874 577650002685 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 577650002686 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 577650002687 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 577650002688 DNA topoisomerase III; Validated; Region: PRK08173 577650002689 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 577650002690 active site 577650002691 putative interdomain interaction site [polypeptide binding]; other site 577650002692 putative metal-binding site [ion binding]; other site 577650002693 putative nucleotide binding site [chemical binding]; other site 577650002694 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 577650002695 domain I; other site 577650002696 DNA binding groove [nucleotide binding] 577650002697 phosphate binding site [ion binding]; other site 577650002698 domain II; other site 577650002699 domain III; other site 577650002700 nucleotide binding site [chemical binding]; other site 577650002701 catalytic site [active] 577650002702 domain IV; other site 577650002703 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 577650002704 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 577650002705 Oligomerisation domain; Region: Oligomerisation; pfam02410 577650002706 phosphoglyceromutase; Provisional; Region: PRK05434 577650002707 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 577650002708 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 577650002709 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 577650002710 pyridoxal 5'-phosphate binding site [chemical binding]; other site 577650002711 catalytic residue [active] 577650002712 purine nucleoside phosphorylase; Provisional; Region: PRK08202 577650002713 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 577650002714 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 577650002715 active site 577650002716 putative substrate binding pocket [chemical binding]; other site 577650002717 twin arginine translocase protein A; Provisional; Region: tatA; PRK14859 577650002718 Sec-independent protein secretion pathway components [Intracellular trafficking and secretion]; Region: TatA; COG1826 577650002719 Glutamine amidotransferases class-II (Gn-AT)_GlxB-type. GlxB is a glutamine amidotransferase-like protein of unknown function found in bacteria and archaea. GlxB has a structural fold similar to that of other class II glutamine amidotransferases...; Region: GlxB; cd01907 577650002720 putative active site [active] 577650002721 4Fe-4S binding domain; Region: Fer4_6; pfam12837 577650002722 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 577650002723 4Fe-4S binding domain; Region: Fer4; pfam00037 577650002724 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 577650002725 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 577650002726 phosphate binding site [ion binding]; other site 577650002727 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cl00239 577650002728 domain_subunit interface; other site 577650002729 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 577650002730 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 577650002731 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 577650002732 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 577650002733 PAS domain S-box; Region: sensory_box; TIGR00229 577650002734 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 577650002735 putative active site [active] 577650002736 heme pocket [chemical binding]; other site 577650002737 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 577650002738 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 577650002739 putative active site [active] 577650002740 heme pocket [chemical binding]; other site 577650002741 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 577650002742 dimer interface [polypeptide binding]; other site 577650002743 phosphorylation site [posttranslational modification] 577650002744 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 577650002745 ATP binding site [chemical binding]; other site 577650002746 Mg2+ binding site [ion binding]; other site 577650002747 G-X-G motif; other site 577650002748 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 577650002749 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 577650002750 active site 577650002751 phosphorylation site [posttranslational modification] 577650002752 intermolecular recognition site; other site 577650002753 dimerization interface [polypeptide binding]; other site 577650002754 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3755 577650002755 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 577650002756 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 577650002757 DNA binding site [nucleotide binding] 577650002758 active site 577650002759 Transglycosylase; Region: Transgly; pfam00912 577650002760 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 577650002761 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 577650002762 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 577650002763 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 577650002764 ATP binding site [chemical binding]; other site 577650002765 Mg2+ binding site [ion binding]; other site 577650002766 G-X-G motif; other site 577650002767 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 577650002768 ATP binding site [chemical binding]; other site 577650002769 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 577650002770 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 577650002771 histidinol dehydrogenase; Region: hisD; TIGR00069 577650002772 NAD binding site [chemical binding]; other site 577650002773 dimerization interface [polypeptide binding]; other site 577650002774 product binding site; other site 577650002775 substrate binding site [chemical binding]; other site 577650002776 zinc binding site [ion binding]; other site 577650002777 catalytic residues [active] 577650002778 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 577650002779 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 577650002780 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 577650002781 tartrate dehydrogenase; Region: TTC; TIGR02089 577650002782 ribose-phosphate pyrophosphokinase; Region: ribP_PPkin; TIGR01251 577650002783 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 577650002784 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 577650002785 active site 577650002786 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 577650002787 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 577650002788 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 577650002789 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 577650002790 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 577650002791 ATP binding site [chemical binding]; other site 577650002792 putative Mg++ binding site [ion binding]; other site 577650002793 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 577650002794 nucleotide binding region [chemical binding]; other site 577650002795 ATP-binding site [chemical binding]; other site 577650002796 CHAP domain; Region: CHAP; cl17642 577650002797 Radical SAM superfamily; Region: Radical_SAM; pfam04055 577650002798 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 577650002799 FeS/SAM binding site; other site 577650002800 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 577650002801 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 577650002802 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 577650002803 Walker A/P-loop; other site 577650002804 ATP binding site [chemical binding]; other site 577650002805 Q-loop/lid; other site 577650002806 ABC transporter signature motif; other site 577650002807 Walker B; other site 577650002808 D-loop; other site 577650002809 H-loop/switch region; other site 577650002810 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 577650002811 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 577650002812 FtsX-like permease family; Region: FtsX; pfam02687 577650002813 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 577650002814 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 577650002815 dimer interface [polypeptide binding]; other site 577650002816 putative anticodon binding site; other site 577650002817 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 577650002818 motif 1; other site 577650002819 active site 577650002820 motif 2; other site 577650002821 motif 3; other site 577650002822 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 577650002823 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 577650002824 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 577650002825 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 577650002826 active site 577650002827 phosphorylation site [posttranslational modification] 577650002828 intermolecular recognition site; other site 577650002829 dimerization interface [polypeptide binding]; other site 577650002830 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 577650002831 Walker A motif; other site 577650002832 ATP binding site [chemical binding]; other site 577650002833 Walker B motif; other site 577650002834 arginine finger; other site 577650002835 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 577650002836 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 577650002837 PAS fold; Region: PAS_3; pfam08447 577650002838 putative active site [active] 577650002839 heme pocket [chemical binding]; other site 577650002840 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 577650002841 PAS domain; Region: PAS_9; pfam13426 577650002842 putative active site [active] 577650002843 heme pocket [chemical binding]; other site 577650002844 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 577650002845 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 577650002846 metal binding site [ion binding]; metal-binding site 577650002847 active site 577650002848 I-site; other site 577650002849 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 577650002850 alanine aminotransferase; Validated; Region: PRK08363 577650002851 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 577650002852 pyridoxal 5'-phosphate binding site [chemical binding]; other site 577650002853 homodimer interface [polypeptide binding]; other site 577650002854 catalytic residue [active] 577650002855 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 577650002856 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 577650002857 dimer interface [polypeptide binding]; other site 577650002858 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 577650002859 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 577650002860 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 577650002861 nucleotide binding site [chemical binding]; other site 577650002862 NEF interaction site [polypeptide binding]; other site 577650002863 SBD interface [polypeptide binding]; other site 577650002864 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 577650002865 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 577650002866 active site 577650002867 HIGH motif; other site 577650002868 dimer interface [polypeptide binding]; other site 577650002869 KMSKS motif; other site 577650002870 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 577650002871 active site 577650002872 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 577650002873 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 577650002874 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 577650002875 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 577650002876 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 577650002877 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 577650002878 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 577650002879 catalytic site [active] 577650002880 subunit interface [polypeptide binding]; other site 577650002881 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 577650002882 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 577650002883 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 577650002884 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 577650002885 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 577650002886 ATP-grasp domain; Region: ATP-grasp_4; cl17255 577650002887 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 577650002888 IMP binding site; other site 577650002889 dimer interface [polypeptide binding]; other site 577650002890 interdomain contacts; other site 577650002891 partial ornithine binding site; other site 577650002892 FtsH Extracellular; Region: FtsH_ext; pfam06480 577650002893 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 577650002894 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 577650002895 Walker A motif; other site 577650002896 ATP binding site [chemical binding]; other site 577650002897 Walker B motif; other site 577650002898 arginine finger; other site 577650002899 Peptidase family M41; Region: Peptidase_M41; pfam01434 577650002900 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 577650002901 dihydropteroate synthase; Region: DHPS; TIGR01496 577650002902 substrate binding pocket [chemical binding]; other site 577650002903 dimer interface [polypeptide binding]; other site 577650002904 inhibitor binding site; inhibition site 577650002905 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 577650002906 metal ion-dependent adhesion site (MIDAS); other site 577650002907 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 577650002908 TPR motif; other site 577650002909 Tetratricopeptide repeat; Region: TPR_12; pfam13424 577650002910 binding surface 577650002911 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 577650002912 TPR motif; other site 577650002913 binding surface 577650002914 TPR repeat; Region: TPR_11; pfam13414 577650002915 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 577650002916 binding surface 577650002917 TPR motif; other site 577650002918 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 577650002919 binding surface 577650002920 Tetratricopeptide repeat; Region: TPR_16; pfam13432 577650002921 TPR motif; other site 577650002922 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 577650002923 binding surface 577650002924 TPR motif; other site 577650002925 TPR repeat; Region: TPR_11; pfam13414 577650002926 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 577650002927 binding surface 577650002928 TPR motif; other site 577650002929 TPR repeat; Region: TPR_11; pfam13414 577650002930 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 577650002931 TPR motif; other site 577650002932 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_3; cd12174 577650002933 2-hydroxyacid dehydrogenase; Provisional; Region: PRK08410 577650002934 putative ligand binding site [chemical binding]; other site 577650002935 putative NAD binding site [chemical binding]; other site 577650002936 putative catalytic site [active] 577650002937 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 577650002938 L-serine binding site [chemical binding]; other site 577650002939 ACT domain interface; other site 577650002940 Uncharacterized conserved protein [Function unknown]; Region: COG2006 577650002941 Domain of unknown function (DUF362); Region: DUF362; pfam04015 577650002942 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08063 577650002943 1-cyclohexenylcarbonyl_coenzyme A_reductase (ChcA)_like, classical (c) SDRs; Region: ChcA_like_SDR_c; cd05359 577650002944 putative NAD(P) binding site [chemical binding]; other site 577650002945 active site 577650002946 S-adenosylmethionine synthetase; Validated; Region: PRK05250 577650002947 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 577650002948 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 577650002949 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 577650002950 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 577650002951 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 577650002952 homotetramer interface [polypeptide binding]; other site 577650002953 ligand binding site [chemical binding]; other site 577650002954 catalytic site [active] 577650002955 NAD binding site [chemical binding]; other site 577650002956 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 577650002957 Glucose inhibited division protein A; Region: GIDA; pfam01134 577650002958 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 577650002959 Walker A motif; other site 577650002960 ATP binding site [chemical binding]; other site 577650002961 Walker B motif; other site 577650002962 HEAT repeats; Region: HEAT_2; pfam13646 577650002963 HEAT repeats; Region: HEAT_2; pfam13646 577650002964 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 577650002965 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 577650002966 ligand binding site [chemical binding]; other site 577650002967 flexible hinge region; other site 577650002968 PilZ domain; Region: PilZ; pfam07238 577650002969 Maf-like protein; Region: Maf; pfam02545 577650002970 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 577650002971 active site 577650002972 dimer interface [polypeptide binding]; other site 577650002973 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 577650002974 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 577650002975 dimerization interface 3.5A [polypeptide binding]; other site 577650002976 active site 577650002977 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 577650002978 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 577650002979 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 577650002980 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 577650002981 23S rRNA interface [nucleotide binding]; other site 577650002982 L3 interface [polypeptide binding]; other site 577650002983 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 577650002984 putative active site pocket [active] 577650002985 4-fold oligomerization interface [polypeptide binding]; other site 577650002986 metal binding residues [ion binding]; metal-binding site 577650002987 3-fold/trimer interface [polypeptide binding]; other site 577650002988 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 577650002989 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 577650002990 Ligand Binding Site [chemical binding]; other site 577650002991 Protein of unknown function DUF89; Region: DUF89; cl15397 577650002992 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 577650002993 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 577650002994 active site 577650002995 metal binding site [ion binding]; metal-binding site 577650002996 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 577650002997 Catalytic domain of Protein Kinases; Region: PKc; cd00180 577650002998 active site 577650002999 ATP binding site [chemical binding]; other site 577650003000 substrate binding site [chemical binding]; other site 577650003001 activation loop (A-loop); other site 577650003002 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 577650003003 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 577650003004 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 577650003005 ATP binding site [chemical binding]; other site 577650003006 Mg2+ binding site [ion binding]; other site 577650003007 G-X-G motif; other site 577650003008 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 577650003009 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 577650003010 Zn2+ binding site [ion binding]; other site 577650003011 Mg2+ binding site [ion binding]; other site 577650003012 SEC-C motif; Region: SEC-C; pfam02810 577650003013 Predicted integral membrane protein [Function unknown]; Region: COG5652 577650003014 PEP-CTERM motif; Region: VPEP; pfam07589 577650003015 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 577650003016 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 577650003017 dimer interface [polypeptide binding]; other site 577650003018 active site 577650003019 Schiff base residues; other site 577650003020 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 577650003021 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 577650003022 active site 577650003023 phosphorylation site [posttranslational modification] 577650003024 intermolecular recognition site; other site 577650003025 dimerization interface [polypeptide binding]; other site 577650003026 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 577650003027 Walker A motif; other site 577650003028 ATP binding site [chemical binding]; other site 577650003029 Walker B motif; other site 577650003030 arginine finger; other site 577650003031 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 577650003032 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 577650003033 dimerization interface [polypeptide binding]; other site 577650003034 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 577650003035 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 577650003036 putative active site [active] 577650003037 heme pocket [chemical binding]; other site 577650003038 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 577650003039 dimer interface [polypeptide binding]; other site 577650003040 phosphorylation site [posttranslational modification] 577650003041 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 577650003042 ATP binding site [chemical binding]; other site 577650003043 Mg2+ binding site [ion binding]; other site 577650003044 G-X-G motif; other site 577650003045 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 577650003046 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 577650003047 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 577650003048 RNB domain; Region: RNB; pfam00773 577650003049 GTPase Era; Reviewed; Region: era; PRK00089 577650003050 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 577650003051 G1 box; other site 577650003052 GTP/Mg2+ binding site [chemical binding]; other site 577650003053 Switch I region; other site 577650003054 G2 box; other site 577650003055 Switch II region; other site 577650003056 G3 box; other site 577650003057 G4 box; other site 577650003058 G5 box; other site 577650003059 KH domain; Region: KH_2; pfam07650 577650003060 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 577650003061 C-terminal peptidase (prc); Region: prc; TIGR00225 577650003062 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 577650003063 protein binding site [polypeptide binding]; other site 577650003064 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 577650003065 Catalytic dyad [active] 577650003066 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 577650003067 Peptidase family M23; Region: Peptidase_M23; pfam01551 577650003068 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 577650003069 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 577650003070 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 577650003071 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 577650003072 Walker A/P-loop; other site 577650003073 ATP binding site [chemical binding]; other site 577650003074 Q-loop/lid; other site 577650003075 ABC transporter signature motif; other site 577650003076 Walker B; other site 577650003077 D-loop; other site 577650003078 H-loop/switch region; other site 577650003079 2-phosphoglycolate phosphatase, prokaryotic; Region: PGP_bact; TIGR01449 577650003080 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 577650003081 motif II; other site 577650003082 Protein of unknown function (DUF445); Region: DUF445; pfam04286 577650003083 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 577650003084 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 577650003085 ligand binding site [chemical binding]; other site 577650003086 glycogen branching enzyme; Provisional; Region: PRK12313 577650003087 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 577650003088 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 577650003089 active site 577650003090 catalytic site [active] 577650003091 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 577650003092 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 577650003093 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 577650003094 active site 577650003095 NAD binding site [chemical binding]; other site 577650003096 metal binding site [ion binding]; metal-binding site 577650003097 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 577650003098 CAAX protease self-immunity; Region: Abi; cl00558 577650003099 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 577650003100 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 577650003101 S-adenosylmethionine binding site [chemical binding]; other site 577650003102 UGMP family protein; Validated; Region: PRK09604 577650003103 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 577650003104 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 577650003105 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 577650003106 FeS/SAM binding site; other site 577650003107 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 577650003108 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 577650003109 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 577650003110 pyridoxal 5'-phosphate binding site [chemical binding]; other site 577650003111 homodimer interface [polypeptide binding]; other site 577650003112 catalytic residue [active] 577650003113 FAD binding domain; Region: FAD_binding_4; pfam01565 577650003114 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 577650003115 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 577650003116 dimer interface [polypeptide binding]; other site 577650003117 conserved gate region; other site 577650003118 putative PBP binding loops; other site 577650003119 ABC-ATPase subunit interface; other site 577650003120 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 577650003121 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 577650003122 Walker A/P-loop; other site 577650003123 ATP binding site [chemical binding]; other site 577650003124 Q-loop/lid; other site 577650003125 ABC transporter signature motif; other site 577650003126 Walker B; other site 577650003127 D-loop; other site 577650003128 H-loop/switch region; other site 577650003129 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 577650003130 ABC-ATPase subunit interface; other site 577650003131 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 577650003132 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 577650003133 substrate binding pocket [chemical binding]; other site 577650003134 membrane-bound complex binding site; other site 577650003135 hinge residues; other site 577650003136 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 577650003137 dimerization interface [polypeptide binding]; other site 577650003138 PAS domain S-box; Region: sensory_box; TIGR00229 577650003139 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 577650003140 putative active site [active] 577650003141 heme pocket [chemical binding]; other site 577650003142 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 577650003143 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 577650003144 putative active site [active] 577650003145 heme pocket [chemical binding]; other site 577650003146 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 577650003147 dimer interface [polypeptide binding]; other site 577650003148 phosphorylation site [posttranslational modification] 577650003149 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 577650003150 ATP binding site [chemical binding]; other site 577650003151 Mg2+ binding site [ion binding]; other site 577650003152 G-X-G motif; other site 577650003153 Response regulator receiver domain; Region: Response_reg; pfam00072 577650003154 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 577650003155 active site 577650003156 phosphorylation site [posttranslational modification] 577650003157 intermolecular recognition site; other site 577650003158 dimerization interface [polypeptide binding]; other site 577650003159 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 577650003160 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 577650003161 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 577650003162 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 577650003163 ABC transporter; Region: ABC_tran_2; pfam12848 577650003164 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 577650003165 Chorismate mutase type II; Region: CM_2; pfam01817 577650003166 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 577650003167 Prephenate dehydratase; Region: PDT; pfam00800 577650003168 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 577650003169 putative L-Phe binding site [chemical binding]; other site 577650003170 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 577650003171 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 577650003172 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 577650003173 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 577650003174 ATP binding site [chemical binding]; other site 577650003175 Mg++ binding site [ion binding]; other site 577650003176 motif III; other site 577650003177 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 577650003178 nucleotide binding region [chemical binding]; other site 577650003179 ATP-binding site [chemical binding]; other site 577650003180 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 577650003181 DNA-binding site [nucleotide binding]; DNA binding site 577650003182 RNA-binding motif; other site 577650003183 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 577650003184 active site 577650003185 ATP binding site [chemical binding]; other site 577650003186 substrate binding site [chemical binding]; other site 577650003187 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 577650003188 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 577650003189 Ligand Binding Site [chemical binding]; other site 577650003190 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 577650003191 Isochorismatase family; Region: Isochorismatase; pfam00857 577650003192 catalytic triad [active] 577650003193 conserved cis-peptide bond; other site 577650003194 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 577650003195 DNA-binding site [nucleotide binding]; DNA binding site 577650003196 RNA-binding motif; other site 577650003197 Excalibur calcium-binding domain; Region: Excalibur; pfam05901 577650003198 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 577650003199 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 577650003200 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 577650003201 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 577650003202 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 577650003203 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 577650003204 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 577650003205 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 577650003206 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 577650003207 active site 577650003208 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 577650003209 putative deacylase active site [active] 577650003210 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 577650003211 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 577650003212 Protein of unknown function (DUF3644); Region: DUF3644; pfam12358 577650003213 Uncharacterized conserved protein (DUF2042); Region: DUF2042; cl10727 577650003214 Transposase domain (DUF772); Region: DUF772; pfam05598 577650003215 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 577650003216 DDE superfamily endonuclease; Region: DDE_4; cl17710 577650003217 DNA methylase; Region: N6_N4_Mtase; cl17433 577650003218 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 577650003219 Sulphur transport; Region: Sulf_transp; pfam04143 577650003220 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 577650003221 active site 577650003222 Int/Topo IB signature motif; other site 577650003223 DNA binding site [nucleotide binding] 577650003224 Phage associated DNA primase [General function prediction only]; Region: COG3378 577650003225 Poxvirus D5 protein-like; Region: Pox_D5; pfam03288 577650003226 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c_3; pfam13589 577650003227 Mg2+ binding site [ion binding]; other site 577650003228 G-X-G motif; other site 577650003229 Domain of unknown function (DUF4263); Region: DUF4263; pfam14082 577650003230 imidazole glycerol phosphate synthase hisHF; Region: PLN02617 577650003231 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 577650003232 putative active site [active] 577650003233 oxyanion strand; other site 577650003234 catalytic triad [active] 577650003235 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 577650003236 substrate binding site [chemical binding]; other site 577650003237 glutamase interaction surface [polypeptide binding]; other site 577650003238 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 577650003239 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 577650003240 Substrate binding site; other site 577650003241 metal-binding site 577650003242 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 577650003243 putative trimer interface [polypeptide binding]; other site 577650003244 Phosphotransferase enzyme family; Region: APH; pfam01636 577650003245 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 577650003246 GTP-binding protein Der; Reviewed; Region: PRK00093 577650003247 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 577650003248 G1 box; other site 577650003249 GTP/Mg2+ binding site [chemical binding]; other site 577650003250 Switch I region; other site 577650003251 G2 box; other site 577650003252 Switch II region; other site 577650003253 G3 box; other site 577650003254 G4 box; other site 577650003255 G5 box; other site 577650003256 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 577650003257 G1 box; other site 577650003258 GTP/Mg2+ binding site [chemical binding]; other site 577650003259 Switch I region; other site 577650003260 G2 box; other site 577650003261 G3 box; other site 577650003262 Switch II region; other site 577650003263 G4 box; other site 577650003264 G5 box; other site 577650003265 Hpt domain; Region: Hpt; pfam01627 577650003266 putative binding surface; other site 577650003267 active site 577650003268 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 577650003269 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 577650003270 Ligand Binding Site [chemical binding]; other site 577650003271 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 577650003272 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 577650003273 active site 577650003274 phosphorylation site [posttranslational modification] 577650003275 intermolecular recognition site; other site 577650003276 dimerization interface [polypeptide binding]; other site 577650003277 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 577650003278 Walker A motif; other site 577650003279 ATP binding site [chemical binding]; other site 577650003280 Walker B motif; other site 577650003281 arginine finger; other site 577650003282 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 577650003283 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 577650003284 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 577650003285 phosphorylation site [posttranslational modification] 577650003286 dimer interface [polypeptide binding]; other site 577650003287 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 577650003288 ATP binding site [chemical binding]; other site 577650003289 G-X-G motif; other site 577650003290 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 577650003291 active site residue [active] 577650003292 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 577650003293 dinuclear metal binding motif [ion binding]; other site 577650003294 DsrC like protein; Region: DsrC; cl01101 577650003295 DsrC like protein; Region: DsrC; cl01101 577650003296 DsrC like protein; Region: DsrC; cl01101 577650003297 DsrC like protein; Region: DsrC; cl01101 577650003298 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 577650003299 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 577650003300 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 577650003301 G1 box; other site 577650003302 putative GEF interaction site [polypeptide binding]; other site 577650003303 GTP/Mg2+ binding site [chemical binding]; other site 577650003304 Switch I region; other site 577650003305 G2 box; other site 577650003306 G3 box; other site 577650003307 Switch II region; other site 577650003308 G4 box; other site 577650003309 G5 box; other site 577650003310 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 577650003311 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 577650003312 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 577650003313 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 577650003314 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 577650003315 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 577650003316 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 577650003317 Walker A motif; other site 577650003318 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 577650003319 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 577650003320 putative dimer interface [polypeptide binding]; other site 577650003321 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 577650003322 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 577650003323 Walker A motif; other site 577650003324 ATP binding site [chemical binding]; other site 577650003325 Walker B motif; other site 577650003326 arginine finger; other site 577650003327 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 577650003328 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 577650003329 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 577650003330 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 577650003331 P loop; other site 577650003332 GTP binding site [chemical binding]; other site 577650003333 tellurium resistance terB-like protein; Region: terB_like; cd07177 577650003334 metal binding site [ion binding]; metal-binding site 577650003335 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 577650003336 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 577650003337 HSP70 interaction site [polypeptide binding]; other site 577650003338 aspartate aminotransferase; Provisional; Region: PRK06836 577650003339 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 577650003340 pyridoxal 5'-phosphate binding site [chemical binding]; other site 577650003341 homodimer interface [polypeptide binding]; other site 577650003342 catalytic residue [active] 577650003343 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14314 577650003344 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 577650003345 active site 577650003346 substrate binding site [chemical binding]; other site 577650003347 metal binding site [ion binding]; metal-binding site 577650003348 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 577650003349 YbbR-like protein; Region: YbbR; pfam07949 577650003350 Uncharacterized conserved protein [Function unknown]; Region: COG1624 577650003351 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 577650003352 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 577650003353 FMN binding site [chemical binding]; other site 577650003354 dimer interface [polypeptide binding]; other site 577650003355 Putative transmembrane protein (PGPGW); Region: PGPGW; pfam09656 577650003356 Domain of unknown function (DUF4114); Region: DUF4114; pfam13448 577650003357 PilZ domain; Region: PilZ; cl01260 577650003358 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 577650003359 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 577650003360 active site pocket [active] 577650003361 putative dimer interface [polypeptide binding]; other site 577650003362 putative cataytic base [active] 577650003363 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 577650003364 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 577650003365 generic binding surface II; other site 577650003366 generic binding surface I; other site 577650003367 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 577650003368 Pantoate-beta-alanine ligase; Region: PanC; cd00560 577650003369 pantoate--beta-alanine ligase; Region: panC; TIGR00018 577650003370 active site 577650003371 ATP-binding site [chemical binding]; other site 577650003372 pantoate-binding site; other site 577650003373 HXXH motif; other site 577650003374 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 577650003375 inhibitor-cofactor binding pocket; inhibition site 577650003376 pyridoxal 5'-phosphate binding site [chemical binding]; other site 577650003377 catalytic residue [active] 577650003378 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 577650003379 S-adenosylmethionine binding site [chemical binding]; other site 577650003380 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 577650003381 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 577650003382 Ligand binding site; other site 577650003383 oligomer interface; other site 577650003384 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 577650003385 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 577650003386 putative substrate binding pocket [chemical binding]; other site 577650003387 dimer interface [polypeptide binding]; other site 577650003388 phosphate binding site [ion binding]; other site 577650003389 PAS domain; Region: PAS; smart00091 577650003390 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 577650003391 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 577650003392 dimer interface [polypeptide binding]; other site 577650003393 phosphorylation site [posttranslational modification] 577650003394 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 577650003395 ATP binding site [chemical binding]; other site 577650003396 Mg2+ binding site [ion binding]; other site 577650003397 G-X-G motif; other site 577650003398 Response regulator receiver domain; Region: Response_reg; pfam00072 577650003399 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 577650003400 active site 577650003401 phosphorylation site [posttranslational modification] 577650003402 intermolecular recognition site; other site 577650003403 dimerization interface [polypeptide binding]; other site 577650003404 Response regulator receiver domain; Region: Response_reg; pfam00072 577650003405 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 577650003406 active site 577650003407 phosphorylation site [posttranslational modification] 577650003408 intermolecular recognition site; other site 577650003409 dimerization interface [polypeptide binding]; other site 577650003410 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 577650003411 Response regulator receiver domain; Region: Response_reg; pfam00072 577650003412 active site 577650003413 phosphorylation site [posttranslational modification] 577650003414 intermolecular recognition site; other site 577650003415 dimerization interface [polypeptide binding]; other site 577650003416 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 577650003417 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 577650003418 putative active site [active] 577650003419 heme pocket [chemical binding]; other site 577650003420 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 577650003421 dimer interface [polypeptide binding]; other site 577650003422 phosphorylation site [posttranslational modification] 577650003423 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 577650003424 ATP binding site [chemical binding]; other site 577650003425 Mg2+ binding site [ion binding]; other site 577650003426 G-X-G motif; other site 577650003427 Response regulator receiver domain; Region: Response_reg; pfam00072 577650003428 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 577650003429 active site 577650003430 phosphorylation site [posttranslational modification] 577650003431 intermolecular recognition site; other site 577650003432 dimerization interface [polypeptide binding]; other site 577650003433 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; cl02542 577650003434 HSP70 interaction site [polypeptide binding]; other site 577650003435 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 577650003436 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 577650003437 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 577650003438 Walker A/P-loop; other site 577650003439 ATP binding site [chemical binding]; other site 577650003440 Q-loop/lid; other site 577650003441 ABC transporter signature motif; other site 577650003442 Walker B; other site 577650003443 D-loop; other site 577650003444 H-loop/switch region; other site 577650003445 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 577650003446 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 577650003447 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 577650003448 Walker A/P-loop; other site 577650003449 ATP binding site [chemical binding]; other site 577650003450 Q-loop/lid; other site 577650003451 ABC transporter signature motif; other site 577650003452 Walker B; other site 577650003453 D-loop; other site 577650003454 H-loop/switch region; other site 577650003455 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 577650003456 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 577650003457 substrate binding pocket [chemical binding]; other site 577650003458 membrane-bound complex binding site; other site 577650003459 hinge residues; other site 577650003460 Protein of unknown function (DUF3124); Region: DUF3124; pfam11322 577650003461 Protein of unknown function (DUF330); Region: DUF330; pfam03886 577650003462 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 577650003463 mce related protein; Region: MCE; pfam02470 577650003464 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 577650003465 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 577650003466 Walker A/P-loop; other site 577650003467 ATP binding site [chemical binding]; other site 577650003468 Q-loop/lid; other site 577650003469 ABC transporter signature motif; other site 577650003470 Walker B; other site 577650003471 D-loop; other site 577650003472 H-loop/switch region; other site 577650003473 Permease; Region: Permease; pfam02405 577650003474 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 577650003475 putative amphipathic alpha helix; other site 577650003476 Rubredoxin; Region: Rubredoxin; pfam00301 577650003477 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 577650003478 iron binding site [ion binding]; other site 577650003479 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 577650003480 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 577650003481 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 577650003482 GTPase CgtA; Reviewed; Region: obgE; PRK12299 577650003483 GTP1/OBG; Region: GTP1_OBG; pfam01018 577650003484 Obg GTPase; Region: Obg; cd01898 577650003485 G1 box; other site 577650003486 GTP/Mg2+ binding site [chemical binding]; other site 577650003487 Switch I region; other site 577650003488 G2 box; other site 577650003489 G3 box; other site 577650003490 Switch II region; other site 577650003491 G4 box; other site 577650003492 G5 box; other site 577650003493 gamma-glutamyl kinase; Provisional; Region: PRK05429 577650003494 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 577650003495 nucleotide binding site [chemical binding]; other site 577650003496 homotetrameric interface [polypeptide binding]; other site 577650003497 putative phosphate binding site [ion binding]; other site 577650003498 putative allosteric binding site; other site 577650003499 PUA domain; Region: PUA; pfam01472 577650003500 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 577650003501 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 577650003502 putative catalytic cysteine [active] 577650003503 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 577650003504 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 577650003505 active site 577650003506 (T/H)XGH motif; other site 577650003507 PHP family phosphoesterase with a Zn ribbon [General function prediction only]; Region: COG1379 577650003508 DNA helicase II; Region: uvrD; TIGR01075 577650003509 Part of AAA domain; Region: AAA_19; pfam13245 577650003510 Family description; Region: UvrD_C_2; pfam13538 577650003511 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 577650003512 dimer interface [polypeptide binding]; other site 577650003513 phosphorylation site [posttranslational modification] 577650003514 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 577650003515 ATP binding site [chemical binding]; other site 577650003516 Mg2+ binding site [ion binding]; other site 577650003517 G-X-G motif; other site 577650003518 Response regulator receiver domain; Region: Response_reg; pfam00072 577650003519 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 577650003520 active site 577650003521 phosphorylation site [posttranslational modification] 577650003522 intermolecular recognition site; other site 577650003523 dimerization interface [polypeptide binding]; other site 577650003524 Response regulator receiver domain; Region: Response_reg; pfam00072 577650003525 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 577650003526 active site 577650003527 phosphorylation site [posttranslational modification] 577650003528 intermolecular recognition site; other site 577650003529 dimerization interface [polypeptide binding]; other site 577650003530 PAS domain S-box; Region: sensory_box; TIGR00229 577650003531 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 577650003532 putative active site [active] 577650003533 heme pocket [chemical binding]; other site 577650003534 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 577650003535 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 577650003536 metal binding site [ion binding]; metal-binding site 577650003537 active site 577650003538 I-site; other site 577650003539 FOG: CBS domain [General function prediction only]; Region: COG0517 577650003540 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the BON (bacterial OsmY and nodulation domain) domain. BON is a putative phospholipid-binding domain found in a family of osmotic shock protection...; Region: CBS_pair_BON_assoc; cd04586 577650003541 Uncharacterized conserved protein [Function unknown]; Region: COG0062 577650003542 putative carbohydrate kinase; Provisional; Region: PRK10565 577650003543 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 577650003544 putative substrate binding site [chemical binding]; other site 577650003545 putative ATP binding site [chemical binding]; other site 577650003546 Predicted permeases [General function prediction only]; Region: COG0795 577650003547 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 577650003548 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 577650003549 Peptidase family M23; Region: Peptidase_M23; pfam01551 577650003550 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 577650003551 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 577650003552 homodimer interface [polypeptide binding]; other site 577650003553 oligonucleotide binding site [chemical binding]; other site 577650003554 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 577650003555 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 577650003556 active site 577650003557 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 577650003558 Radical SAM superfamily; Region: Radical_SAM; pfam04055 577650003559 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 577650003560 Cellulose synthase catalytic subunit A2 (CESA2) is a catalytic subunit or a catalytic subunit substitute of the cellulose synthase complex; Region: CESA_CaSu_A2; cd06437 577650003561 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 577650003562 DXD motif; other site 577650003563 Protein of unknown function (DUF2799); Region: DUF2799; pfam10973 577650003564 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 577650003565 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 577650003566 active site 577650003567 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 577650003568 dimer interface [polypeptide binding]; other site 577650003569 phosphorylation site [posttranslational modification] 577650003570 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 577650003571 ATP binding site [chemical binding]; other site 577650003572 Mg2+ binding site [ion binding]; other site 577650003573 G-X-G motif; other site 577650003574 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 577650003575 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 577650003576 active site 577650003577 phosphorylation site [posttranslational modification] 577650003578 intermolecular recognition site; other site 577650003579 dimerization interface [polypeptide binding]; other site 577650003580 5-oxoprolinase; Region: PLN02666 577650003581 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 577650003582 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 577650003583 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 577650003584 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 577650003585 active site residue [active] 577650003586 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 577650003587 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 577650003588 competence damage-inducible protein A; Provisional; Region: PRK01215 577650003589 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 577650003590 putative MPT binding site; other site 577650003591 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 577650003592 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 577650003593 active site 577650003594 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 577650003595 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 577650003596 putative substrate translocation pore; other site 577650003597 Major Facilitator Superfamily; Region: MFS_1; pfam07690 577650003598 Methyltransferase domain; Region: Methyltransf_23; pfam13489 577650003599 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 577650003600 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 577650003601 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 577650003602 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 577650003603 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 577650003604 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 577650003605 active site residue [active] 577650003606 enoyl-CoA hydratase; Validated; Region: PRK08139 577650003607 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 577650003608 substrate binding site [chemical binding]; other site 577650003609 oxyanion hole (OAH) forming residues; other site 577650003610 trimer interface [polypeptide binding]; other site 577650003611 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 577650003612 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 577650003613 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 577650003614 PAS domain; Region: PAS_9; pfam13426 577650003615 putative active site [active] 577650003616 heme pocket [chemical binding]; other site 577650003617 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 577650003618 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 577650003619 Walker A motif; other site 577650003620 ATP binding site [chemical binding]; other site 577650003621 Walker B motif; other site 577650003622 arginine finger; other site 577650003623 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 577650003624 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 577650003625 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 577650003626 phosphorylation site [posttranslational modification] 577650003627 intermolecular recognition site; other site 577650003628 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 577650003629 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 577650003630 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 577650003631 switch II; other site 577650003632 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 577650003633 Ferredoxin [Energy production and conversion]; Region: COG1146 577650003634 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 577650003635 switch II; other site 577650003636 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 577650003637 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 577650003638 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 577650003639 Cache domain; Region: Cache_1; pfam02743 577650003640 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 577650003641 dimerization interface [polypeptide binding]; other site 577650003642 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 577650003643 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 577650003644 dimer interface [polypeptide binding]; other site 577650003645 putative CheW interface [polypeptide binding]; other site 577650003646 shikimate kinase; Reviewed; Region: aroK; PRK00131 577650003647 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 577650003648 ADP binding site [chemical binding]; other site 577650003649 magnesium binding site [ion binding]; other site 577650003650 putative shikimate binding site; other site 577650003651 Ferredoxin [Energy production and conversion]; Region: COG1146 577650003652 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 577650003653 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 577650003654 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 577650003655 hybrid cluster protein; Provisional; Region: PRK05290 577650003656 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 577650003657 ACS interaction site; other site 577650003658 CODH interaction site; other site 577650003659 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 577650003660 hybrid metal cluster; other site 577650003661 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 577650003662 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 577650003663 ligand binding site [chemical binding]; other site 577650003664 flexible hinge region; other site 577650003665 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 577650003666 putative switch regulator; other site 577650003667 non-specific DNA interactions [nucleotide binding]; other site 577650003668 DNA binding site [nucleotide binding] 577650003669 sequence specific DNA binding site [nucleotide binding]; other site 577650003670 putative cAMP binding site [chemical binding]; other site 577650003671 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 577650003672 Thiol-activated cytolysin; Region: Thiol_cytolysin; pfam01289 577650003673 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 577650003674 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 577650003675 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 577650003676 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 577650003677 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 577650003678 putative active site; other site 577650003679 catalytic triad [active] 577650003680 putative dimer interface [polypeptide binding]; other site 577650003681 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 577650003682 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 577650003683 Trm112p-like protein; Region: Trm112p; pfam03966 577650003684 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 577650003685 The MopB_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. Members...; Region: MopB_Acetylene-hydratase; cd02759 577650003686 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 577650003687 putative [Fe4-S4] binding site [ion binding]; other site 577650003688 putative molybdopterin cofactor binding site [chemical binding]; other site 577650003689 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 577650003690 molybdopterin cofactor binding site; other site 577650003691 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 577650003692 Ligand Binding Site [chemical binding]; other site 577650003693 Minimal MMP-like domain found in Acidothermus cellulolyticus hypothetical protein ACEL2062 and similar protein; Region: MMP_ACEL2062; cd12952 577650003694 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 577650003695 dimerization interface [polypeptide binding]; other site 577650003696 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 577650003697 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 577650003698 dimer interface [polypeptide binding]; other site 577650003699 putative CheW interface [polypeptide binding]; other site 577650003700 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 577650003701 Major Facilitator Superfamily; Region: MFS_1; pfam07690 577650003702 putative substrate translocation pore; other site 577650003703 Uncharacterized conserved protein (DUF2293); Region: DUF2293; pfam10056 577650003704 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 577650003705 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 577650003706 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 577650003707 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 577650003708 dimerization interface [polypeptide binding]; other site 577650003709 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 577650003710 dimer interface [polypeptide binding]; other site 577650003711 putative CheW interface [polypeptide binding]; other site 577650003712 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 577650003713 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 577650003714 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 577650003715 putative active site [active] 577650003716 heme pocket [chemical binding]; other site 577650003717 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 577650003718 dimer interface [polypeptide binding]; other site 577650003719 phosphorylation site [posttranslational modification] 577650003720 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 577650003721 ATP binding site [chemical binding]; other site 577650003722 Mg2+ binding site [ion binding]; other site 577650003723 G-X-G motif; other site 577650003724 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 577650003725 B12 binding site [chemical binding]; other site 577650003726 cobalt ligand [ion binding]; other site 577650003727 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 577650003728 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 577650003729 Walker A; other site 577650003730 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 577650003731 Methyltransferase domain; Region: Methyltransf_31; pfam13847 577650003732 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 577650003733 S-adenosylmethionine binding site [chemical binding]; other site 577650003734 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 577650003735 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 577650003736 Response regulator receiver domain; Region: Response_reg; pfam00072 577650003737 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 577650003738 active site 577650003739 phosphorylation site [posttranslational modification] 577650003740 intermolecular recognition site; other site 577650003741 dimerization interface [polypeptide binding]; other site 577650003742 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 577650003743 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 577650003744 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 577650003745 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 577650003746 transmembrane helices; other site 577650003747 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 577650003748 Response regulator receiver domain; Region: Response_reg; pfam00072 577650003749 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 577650003750 active site 577650003751 phosphorylation site [posttranslational modification] 577650003752 intermolecular recognition site; other site 577650003753 dimerization interface [polypeptide binding]; other site 577650003754 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 577650003755 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 577650003756 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 577650003757 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 577650003758 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 577650003759 Tetratricopeptide repeat; Region: TPR_12; pfam13424 577650003760 Tetratricopeptide repeat; Region: TPR_12; pfam13424 577650003761 Tetratricopeptide repeat; Region: TPR_10; pfam13374 577650003762 Tetratricopeptide repeat; Region: TPR_10; pfam13374 577650003763 Tetratricopeptide repeat; Region: TPR_12; pfam13424 577650003764 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 577650003765 binding surface 577650003766 TPR motif; other site 577650003767 Tetratricopeptide repeat; Region: TPR_12; pfam13424 577650003768 TIR domain; Region: TIR_2; cl17458 577650003769 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 577650003770 PGAP1-like protein; Region: PGAP1; pfam07819 577650003771 CHAT domain; Region: CHAT; pfam12770 577650003772 Caspase domain; Region: Peptidase_C14; pfam00656 577650003773 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 577650003774 PIF1-like helicase; Region: PIF1; pfam05970 577650003775 Walker A motif; other site 577650003776 ATP binding site [chemical binding]; other site 577650003777 Walker B motif; other site 577650003778 Family description; Region: UvrD_C_2; pfam13538 577650003779 HRDC domain; Region: HRDC; pfam00570 577650003780 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 577650003781 hypothetical protein; Provisional; Region: PRK09256 577650003782 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 577650003783 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 577650003784 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 577650003785 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 577650003786 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 577650003787 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 577650003788 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 577650003789 TrkA-C domain; Region: TrkA_C; pfam02080 577650003790 TrkA-C domain; Region: TrkA_C; pfam02080 577650003791 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 577650003792 Isochorismatase family; Region: Isochorismatase; pfam00857 577650003793 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 577650003794 catalytic triad [active] 577650003795 metal binding site [ion binding]; metal-binding site 577650003796 conserved cis-peptide bond; other site 577650003797 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 577650003798 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 577650003799 active site 577650003800 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 577650003801 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 577650003802 Predicted transcriptional regulators [Transcription]; Region: COG1733 577650003803 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 577650003804 serine/threonine protein kinase; Provisional; Region: PRK11768 577650003805 Phosphotransferase enzyme family; Region: APH; pfam01636 577650003806 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 577650003807 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 577650003808 dimer interface [polypeptide binding]; other site 577650003809 active site 577650003810 metal binding site [ion binding]; metal-binding site 577650003811 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 577650003812 4Fe-4S binding domain; Region: Fer4; pfam00037 577650003813 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 577650003814 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 577650003815 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 577650003816 putative active site [active] 577650003817 heme pocket [chemical binding]; other site 577650003818 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 577650003819 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 577650003820 putative active site [active] 577650003821 heme pocket [chemical binding]; other site 577650003822 PAS domain; Region: PAS; smart00091 577650003823 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 577650003824 dimer interface [polypeptide binding]; other site 577650003825 phosphorylation site [posttranslational modification] 577650003826 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 577650003827 ATP binding site [chemical binding]; other site 577650003828 Mg2+ binding site [ion binding]; other site 577650003829 G-X-G motif; other site 577650003830 Response regulator receiver domain; Region: Response_reg; pfam00072 577650003831 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 577650003832 active site 577650003833 phosphorylation site [posttranslational modification] 577650003834 intermolecular recognition site; other site 577650003835 dimerization interface [polypeptide binding]; other site 577650003836 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 577650003837 LysE type translocator; Region: LysE; cl00565 577650003838 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 577650003839 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 577650003840 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 577650003841 putative active site [active] 577650003842 heme pocket [chemical binding]; other site 577650003843 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 577650003844 dimer interface [polypeptide binding]; other site 577650003845 phosphorylation site [posttranslational modification] 577650003846 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 577650003847 ATP binding site [chemical binding]; other site 577650003848 Mg2+ binding site [ion binding]; other site 577650003849 G-X-G motif; other site 577650003850 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 577650003851 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 577650003852 FeS/SAM binding site; other site 577650003853 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 577650003854 Bacillus subtilis YhcR endonuclease and related proteins, N-terminal metallophosphatase domain; Region: MPP_YhcR_N; cd07412 577650003855 putative active site [active] 577650003856 putative metal binding site [ion binding]; other site 577650003857 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 577650003858 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 577650003859 homodimer interaction site [polypeptide binding]; other site 577650003860 cofactor binding site; other site 577650003861 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 577650003862 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 577650003863 putative active site [active] 577650003864 heme pocket [chemical binding]; other site 577650003865 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 577650003866 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 577650003867 dimer interface [polypeptide binding]; other site 577650003868 phosphorylation site [posttranslational modification] 577650003869 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 577650003870 ATP binding site [chemical binding]; other site 577650003871 Mg2+ binding site [ion binding]; other site 577650003872 G-X-G motif; other site 577650003873 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 577650003874 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 577650003875 active site 577650003876 phosphorylation site [posttranslational modification] 577650003877 intermolecular recognition site; other site 577650003878 dimerization interface [polypeptide binding]; other site 577650003879 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 577650003880 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 577650003881 putative dimer interface [polypeptide binding]; other site 577650003882 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 577650003883 Ligand Binding Site [chemical binding]; other site 577650003884 Response regulator receiver domain; Region: Response_reg; pfam00072 577650003885 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 577650003886 active site 577650003887 phosphorylation site [posttranslational modification] 577650003888 intermolecular recognition site; other site 577650003889 dimerization interface [polypeptide binding]; other site 577650003890 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 577650003891 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 577650003892 putative active site [active] 577650003893 heme pocket [chemical binding]; other site 577650003894 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 577650003895 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 577650003896 putative active site [active] 577650003897 heme pocket [chemical binding]; other site 577650003898 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 577650003899 putative active site [active] 577650003900 heme pocket [chemical binding]; other site 577650003901 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 577650003902 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 577650003903 PAS fold; Region: PAS_3; pfam08447 577650003904 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 577650003905 heme pocket [chemical binding]; other site 577650003906 putative active site [active] 577650003907 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 577650003908 dimer interface [polypeptide binding]; other site 577650003909 phosphorylation site [posttranslational modification] 577650003910 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 577650003911 ATP binding site [chemical binding]; other site 577650003912 Mg2+ binding site [ion binding]; other site 577650003913 G-X-G motif; other site 577650003914 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 577650003915 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 577650003916 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 577650003917 NAD(P) binding site [chemical binding]; other site 577650003918 active site 577650003919 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 577650003920 N-terminal Early set domain, a glycogen binding domain, associated with the catalytic domain of AMP-activated protein kinase beta subunit; Region: E_set_AMPKbeta_like_N; cd02859 577650003921 glycogen binding site [chemical binding]; other site 577650003922 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 577650003923 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 577650003924 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 577650003925 DNA binding residues [nucleotide binding] 577650003926 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 577650003927 Cytochrome c; Region: Cytochrom_C; pfam00034 577650003928 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 577650003929 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 577650003930 dimerization interface [polypeptide binding]; other site 577650003931 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 577650003932 dimer interface [polypeptide binding]; other site 577650003933 phosphorylation site [posttranslational modification] 577650003934 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 577650003935 ATP binding site [chemical binding]; other site 577650003936 Mg2+ binding site [ion binding]; other site 577650003937 G-X-G motif; other site 577650003938 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 577650003939 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 577650003940 active site 577650003941 phosphorylation site [posttranslational modification] 577650003942 intermolecular recognition site; other site 577650003943 dimerization interface [polypeptide binding]; other site 577650003944 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 577650003945 DNA binding site [nucleotide binding] 577650003946 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 577650003947 malate synthase A; Region: malate_syn_A; TIGR01344 577650003948 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 cycle, which allows certain organisms, like plants and fungi, to derive their...; Region: malate_synt; cl17217 577650003949 active site 577650003950 PAS domain; Region: PAS_9; pfam13426 577650003951 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 577650003952 putative active site [active] 577650003953 heme pocket [chemical binding]; other site 577650003954 PAS fold; Region: PAS_4; pfam08448 577650003955 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 577650003956 putative active site [active] 577650003957 heme pocket [chemical binding]; other site 577650003958 PAS domain S-box; Region: sensory_box; TIGR00229 577650003959 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 577650003960 putative active site [active] 577650003961 heme pocket [chemical binding]; other site 577650003962 PAS fold; Region: PAS_4; pfam08448 577650003963 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 577650003964 putative active site [active] 577650003965 heme pocket [chemical binding]; other site 577650003966 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 577650003967 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 577650003968 putative active site [active] 577650003969 heme pocket [chemical binding]; other site 577650003970 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 577650003971 dimer interface [polypeptide binding]; other site 577650003972 phosphorylation site [posttranslational modification] 577650003973 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 577650003974 ATP binding site [chemical binding]; other site 577650003975 Mg2+ binding site [ion binding]; other site 577650003976 G-X-G motif; other site 577650003977 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 577650003978 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 577650003979 active site 577650003980 phosphorylation site [posttranslational modification] 577650003981 intermolecular recognition site; other site 577650003982 dimerization interface [polypeptide binding]; other site 577650003983 TPR repeat; Region: TPR_11; pfam13414 577650003984 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 577650003985 binding surface 577650003986 TPR motif; other site 577650003987 TPR repeat; Region: TPR_11; pfam13414 577650003988 PAS fold; Region: PAS_4; pfam08448 577650003989 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 577650003990 PAS domain; Region: PAS_9; pfam13426 577650003991 putative active site [active] 577650003992 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 577650003993 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 577650003994 metal binding site [ion binding]; metal-binding site 577650003995 active site 577650003996 I-site; other site 577650003997 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 577650003998 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 577650003999 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 577650004000 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 577650004001 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 577650004002 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 577650004003 dimer interface [polypeptide binding]; other site 577650004004 active site 577650004005 metal binding site [ion binding]; metal-binding site 577650004006 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 577650004007 PAS fold; Region: PAS_4; pfam08448 577650004008 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 577650004009 putative active site [active] 577650004010 heme pocket [chemical binding]; other site 577650004011 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 577650004012 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 577650004013 putative active site [active] 577650004014 heme pocket [chemical binding]; other site 577650004015 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 577650004016 putative active site [active] 577650004017 heme pocket [chemical binding]; other site 577650004018 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 577650004019 dimer interface [polypeptide binding]; other site 577650004020 phosphorylation site [posttranslational modification] 577650004021 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 577650004022 ATP binding site [chemical binding]; other site 577650004023 Mg2+ binding site [ion binding]; other site 577650004024 G-X-G motif; other site 577650004025 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 577650004026 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 577650004027 active site 577650004028 phosphorylation site [posttranslational modification] 577650004029 intermolecular recognition site; other site 577650004030 dimerization interface [polypeptide binding]; other site 577650004031 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 577650004032 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 577650004033 putative acyl-acceptor binding pocket; other site 577650004034 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 577650004035 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 577650004036 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 577650004037 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 577650004038 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 577650004039 putative active site [active] 577650004040 putative metal binding site [ion binding]; other site 577650004041 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 577650004042 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; pfam02666 577650004043 HAMP domain; Region: HAMP; pfam00672 577650004044 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 577650004045 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 577650004046 dimer interface [polypeptide binding]; other site 577650004047 putative CheW interface [polypeptide binding]; other site 577650004048 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 577650004049 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 577650004050 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 577650004051 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 577650004052 metal binding site [ion binding]; metal-binding site 577650004053 active site 577650004054 I-site; other site 577650004055 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 577650004056 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 577650004057 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 577650004058 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 577650004059 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 577650004060 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 577650004061 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 577650004062 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 577650004063 HlyD family secretion protein; Region: HlyD_3; pfam13437 577650004064 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 577650004065 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 577650004066 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cl01109 577650004067 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 577650004068 Paraquat-inducible protein A; Region: PqiA; pfam04403 577650004069 Paraquat-inducible protein A; Region: PqiA; pfam04403 577650004070 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 577650004071 mce related protein; Region: MCE; pfam02470 577650004072 mce related protein; Region: MCE; pfam02470 577650004073 mce related protein; Region: MCE; pfam02470 577650004074 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 577650004075 Protein of unknown function (DUF330); Region: DUF330; pfam03886 577650004076 putative acyltransferase; Provisional; Region: PRK05790 577650004077 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 577650004078 dimer interface [polypeptide binding]; other site 577650004079 active site 577650004080 putative metalloenzyme radical SAM/SPASM domain maturase; Region: rSAM_Geo_metal; TIGR04311 577650004081 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 577650004082 FeS/SAM binding site; other site 577650004083 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 577650004084 Methyltransferase domain; Region: Methyltransf_31; pfam13847 577650004085 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 577650004086 S-adenosylmethionine binding site [chemical binding]; other site 577650004087 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 577650004088 Predicted permeases [General function prediction only]; Region: COG0701 577650004089 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 577650004090 dimerization interface [polypeptide binding]; other site 577650004091 putative DNA binding site [nucleotide binding]; other site 577650004092 putative Zn2+ binding site [ion binding]; other site 577650004093 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 577650004094 dimerization interface [polypeptide binding]; other site 577650004095 putative DNA binding site [nucleotide binding]; other site 577650004096 putative Zn2+ binding site [ion binding]; other site 577650004097 Predicted permease; Region: DUF318; cl17795 577650004098 Predicted permease; Region: DUF318; cl17795 577650004099 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 577650004100 DGC domain; Region: DGC; pfam08859 577650004101 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 577650004102 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 577650004103 catalytic residues [active] 577650004104 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 577650004105 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 577650004106 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 577650004107 Ligand Binding Site [chemical binding]; other site 577650004108 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 577650004109 Ligand Binding Site [chemical binding]; other site 577650004110 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 577650004111 active site residue [active] 577650004112 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 577650004113 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 577650004114 active site residue [active] 577650004115 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 577650004116 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 577650004117 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 577650004118 active site residue [active] 577650004119 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 577650004120 active site residue [active] 577650004121 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 577650004122 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 577650004123 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 577650004124 alpha subunit interaction interface [polypeptide binding]; other site 577650004125 Walker A motif; other site 577650004126 ATP binding site [chemical binding]; other site 577650004127 Walker B motif; other site 577650004128 inhibitor binding site; inhibition site 577650004129 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 577650004130 F0F1 ATP synthase subunit epsilon; Validated; Region: PRK06228 577650004131 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 577650004132 gamma subunit interface [polypeptide binding]; other site 577650004133 epsilon subunit interface [polypeptide binding]; other site 577650004134 LBP interface [polypeptide binding]; other site 577650004135 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 577650004136 N-ATPase, AtpR subunit; Region: AtpR; pfam12966 577650004137 ATP synthase A chain; Region: ATP-synt_A; cl00413 577650004138 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 577650004139 alternate F1F0 ATPase, F0 subunit C; Region: alt_F1F0_F0_C; TIGR03322 577650004140 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 577650004141 alternate F1F0 ATPase, F0 subunit B; Region: alt_F1F0_F0_B; TIGR03321 577650004142 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 577650004143 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 577650004144 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 577650004145 Walker A motif; other site 577650004146 ATP binding site [chemical binding]; other site 577650004147 Walker B motif; other site 577650004148 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 577650004149 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 577650004150 core domain interface [polypeptide binding]; other site 577650004151 delta subunit interface [polypeptide binding]; other site 577650004152 epsilon subunit interface [polypeptide binding]; other site 577650004153 Predicted permeases [General function prediction only]; Region: COG0701 577650004154 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 577650004155 dimerization interface [polypeptide binding]; other site 577650004156 putative DNA binding site [nucleotide binding]; other site 577650004157 putative Zn2+ binding site [ion binding]; other site 577650004158 arsenical pump-driving ATPase; Region: arsen_driv_ArsA; TIGR04291 577650004159 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 577650004160 P loop; other site 577650004161 Nucleotide binding site [chemical binding]; other site 577650004162 DTAP/Switch II; other site 577650004163 Switch I; other site 577650004164 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 577650004165 Nucleotide binding site [chemical binding]; other site 577650004166 DTAP/Switch II; other site 577650004167 Switch I; other site 577650004168 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 577650004169 Low molecular weight phosphatase family; Region: LMWPc; cd00115 577650004170 active site 577650004171 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 577650004172 Low molecular weight phosphatase family; Region: LMWPc; cd00115 577650004173 active site 577650004174 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 577650004175 arsenical-resistance protein; Region: acr3; TIGR00832 577650004176 tetrathionate reductase subunit A; Provisional; Region: PRK14991 577650004177 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 577650004178 molybdopterin cofactor binding site; other site 577650004179 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 577650004180 This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins; Region: MopB_CT_Tetrathionate_Arsenate-R; cd02780 577650004181 putative molybdopterin cofactor binding site; other site 577650004182 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 577650004183 4Fe-4S binding domain; Region: Fer4; pfam00037 577650004184 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 577650004185 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 577650004186 dimerization interface [polypeptide binding]; other site 577650004187 putative DNA binding site [nucleotide binding]; other site 577650004188 putative Zn2+ binding site [ion binding]; other site 577650004189 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 577650004190 Radical SAM superfamily; Region: Radical_SAM; pfam04055 577650004191 FeS/SAM binding site; other site 577650004192 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 577650004193 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 577650004194 AAA-like domain; Region: AAA_10; pfam12846 577650004195 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 577650004196 Zn2+ binding site [ion binding]; other site 577650004197 Mg2+ binding site [ion binding]; other site 577650004198 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 577650004199 IHF - DNA interface [nucleotide binding]; other site 577650004200 IHF dimer interface [polypeptide binding]; other site 577650004201 integrase; Provisional; Region: int; PHA02601 577650004202 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 577650004203 active site 577650004204 DNA binding site [nucleotide binding] 577650004205 Int/Topo IB signature motif; other site 577650004206 Ion channel; Region: Ion_trans_2; pfam07885 577650004207 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 577650004208 TrkA-N domain; Region: TrkA_N; pfam02254 577650004209 TrkA-C domain; Region: TrkA_C; pfam02080 577650004210 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 577650004211 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 577650004212 active site 577650004213 hydrophilic channel; other site 577650004214 dimerization interface [polypeptide binding]; other site 577650004215 catalytic residues [active] 577650004216 active site lid [active] 577650004217 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 577650004218 PhoH-like protein; Region: PhoH; pfam02562 577650004219 Thioredoxin; Region: Thioredoxin_4; pfam13462 577650004220 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 577650004221 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08665 577650004222 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 577650004223 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 577650004224 active site 577650004225 dimer interface [polypeptide binding]; other site 577650004226 effector binding site; other site 577650004227 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 577650004228 TSCPD domain; Region: TSCPD; cl14834 577650004229 Autotransporter beta-domain; Region: Autotransporter; pfam03797 577650004230 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 577650004231 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 577650004232 BON domain; Region: BON; pfam04972 577650004233 FOG: CBS domain [General function prediction only]; Region: COG0517 577650004234 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_9; cd04622 577650004235 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 577650004236 PAS domain; Region: PAS_9; pfam13426 577650004237 putative active site [active] 577650004238 heme pocket [chemical binding]; other site 577650004239 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 577650004240 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 577650004241 ATP binding site [chemical binding]; other site 577650004242 Mg2+ binding site [ion binding]; other site 577650004243 G-X-G motif; other site 577650004244 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 577650004245 Response regulator receiver domain; Region: Response_reg; pfam00072 577650004246 active site 577650004247 phosphorylation site [posttranslational modification] 577650004248 intermolecular recognition site; other site 577650004249 dimerization interface [polypeptide binding]; other site 577650004250 HDOD domain; Region: HDOD; pfam08668 577650004251 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 577650004252 Zn2+ binding site [ion binding]; other site 577650004253 Mg2+ binding site [ion binding]; other site 577650004254 Response regulator receiver domain; Region: Response_reg; pfam00072 577650004255 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 577650004256 active site 577650004257 phosphorylation site [posttranslational modification] 577650004258 intermolecular recognition site; other site 577650004259 dimerization interface [polypeptide binding]; other site 577650004260 HD domain; Region: HD_5; pfam13487 577650004261 Uncharacterized protein conserved in bacteria (DUF2332); Region: DUF2332; pfam10094 577650004262 Predicted membrane protein [Function unknown]; Region: COG1238 577650004263 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 577650004264 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 577650004265 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 577650004266 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 577650004267 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 577650004268 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 577650004269 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 577650004270 Walker A/P-loop; other site 577650004271 ATP binding site [chemical binding]; other site 577650004272 Q-loop/lid; other site 577650004273 ABC transporter signature motif; other site 577650004274 Walker B; other site 577650004275 D-loop; other site 577650004276 H-loop/switch region; other site 577650004277 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 577650004278 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 577650004279 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 577650004280 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 577650004281 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 577650004282 trimer interface [polypeptide binding]; other site 577650004283 active site 577650004284 UDP-GlcNAc binding site [chemical binding]; other site 577650004285 lipid binding site [chemical binding]; lipid-binding site 577650004286 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 577650004287 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 577650004288 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 577650004289 active site 577650004290 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 577650004291 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 577650004292 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 577650004293 putative dimer interface [polypeptide binding]; other site 577650004294 putative anticodon binding site; other site 577650004295 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 577650004296 homodimer interface [polypeptide binding]; other site 577650004297 motif 1; other site 577650004298 motif 2; other site 577650004299 active site 577650004300 motif 3; other site 577650004301 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 577650004302 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 577650004303 HflX GTPase family; Region: HflX; cd01878 577650004304 G1 box; other site 577650004305 GTP/Mg2+ binding site [chemical binding]; other site 577650004306 Switch I region; other site 577650004307 G2 box; other site 577650004308 G3 box; other site 577650004309 Switch II region; other site 577650004310 G4 box; other site 577650004311 G5 box; other site 577650004312 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 577650004313 active site 577650004314 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 577650004315 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 577650004316 glutaminase active site [active] 577650004317 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 577650004318 dimer interface [polypeptide binding]; other site 577650004319 active site 577650004320 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 577650004321 dimer interface [polypeptide binding]; other site 577650004322 active site 577650004323 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 577650004324 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 577650004325 HlyD family secretion protein; Region: HlyD_3; pfam13437 577650004326 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 577650004327 Protein export membrane protein; Region: SecD_SecF; cl14618 577650004328 Protein export membrane protein; Region: SecD_SecF; cl14618 577650004329 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 577650004330 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 577650004331 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 577650004332 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 577650004333 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 577650004334 Protein export membrane protein; Region: SecD_SecF; cl14618 577650004335 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 577650004336 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 577650004337 HlyD family secretion protein; Region: HlyD_3; pfam13437 577650004338 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 577650004339 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 577650004340 HlyD family secretion protein; Region: HlyD_3; pfam13437 577650004341 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 577650004342 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 577650004343 Walker A/P-loop; other site 577650004344 ATP binding site [chemical binding]; other site 577650004345 Q-loop/lid; other site 577650004346 ABC transporter signature motif; other site 577650004347 Walker B; other site 577650004348 D-loop; other site 577650004349 H-loop/switch region; other site 577650004350 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 577650004351 Walker A/P-loop; other site 577650004352 ATP binding site [chemical binding]; other site 577650004353 Q-loop/lid; other site 577650004354 ABC transporter signature motif; other site 577650004355 Walker B; other site 577650004356 D-loop; other site 577650004357 H-loop/switch region; other site 577650004358 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 577650004359 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 577650004360 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 577650004361 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 577650004362 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 577650004363 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 577650004364 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 577650004365 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 577650004366 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 577650004367 S-adenosylmethionine binding site [chemical binding]; other site 577650004368 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 577650004369 S-adenosylmethionine binding site [chemical binding]; other site 577650004370 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 577650004371 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 577650004372 active site 577650004373 DNA binding site [nucleotide binding] 577650004374 Int/Topo IB signature motif; other site 577650004375 Zonular occludens toxin (Zot); Region: Zot; cl17485 577650004376 Transposase domain (DUF772); Region: DUF772; pfam05598 577650004377 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 577650004378 DDE superfamily endonuclease; Region: DDE_4; cl17710 577650004379 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 577650004380 non-specific DNA binding site [nucleotide binding]; other site 577650004381 salt bridge; other site 577650004382 sequence-specific DNA binding site [nucleotide binding]; other site 577650004383 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 577650004384 non-specific DNA binding site [nucleotide binding]; other site 577650004385 salt bridge; other site 577650004386 sequence-specific DNA binding site [nucleotide binding]; other site 577650004387 Ion channel; Region: Ion_trans_2; pfam07885 577650004388 TrkA-N domain; Region: TrkA_N; pfam02254 577650004389 TrkA-C domain; Region: TrkA_C; pfam02080 577650004390 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 577650004391 TrkA-N domain; Region: TrkA_N; pfam02254 577650004392 TrkA-C domain; Region: TrkA_C; pfam02080 577650004393 FOG: CBS domain [General function prediction only]; Region: COG0517 577650004394 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 577650004395 Nitrogen regulatory protein P-II; Region: P-II; smart00938 577650004396 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 577650004397 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 577650004398 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 577650004399 4Fe-4S binding domain; Region: Fer4; pfam00037 577650004400 4Fe-4S binding domain; Region: Fer4; pfam00037 577650004401 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 577650004402 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 577650004403 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 577650004404 Cysteine-rich domain; Region: CCG; pfam02754 577650004405 Cysteine-rich domain; Region: CCG; pfam02754 577650004406 4Fe-4S binding domain; Region: Fer4; pfam00037 577650004407 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 577650004408 NADPH-dependent glutamate synthase beta chain and related oxidoreductases [Amino acid transport and metabolism / General function prediction only]; Region: GltD; COG0493 577650004409 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 577650004410 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 577650004411 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 577650004412 4Fe-4S binding domain; Region: Fer4; pfam00037 577650004413 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 577650004414 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 577650004415 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 577650004416 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 577650004417 TPP-binding site [chemical binding]; other site 577650004418 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 577650004419 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 577650004420 dimer interface [polypeptide binding]; other site 577650004421 PYR/PP interface [polypeptide binding]; other site 577650004422 TPP binding site [chemical binding]; other site 577650004423 substrate binding site [chemical binding]; other site 577650004424 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 577650004425 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 577650004426 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 577650004427 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 577650004428 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 577650004429 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 577650004430 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 577650004431 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 577650004432 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 577650004433 NAD(P) binding site [chemical binding]; other site 577650004434 active site 577650004435 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 577650004436 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 577650004437 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 577650004438 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 577650004439 FeS/SAM binding site; other site 577650004440 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 577650004441 active site 577650004442 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 577650004443 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 577650004444 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 577650004445 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 577650004446 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 577650004447 Walker A motif; other site 577650004448 ATP binding site [chemical binding]; other site 577650004449 Walker B motif; other site 577650004450 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 577650004451 PAS domain S-box; Region: sensory_box; TIGR00229 577650004452 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 577650004453 putative active site [active] 577650004454 heme pocket [chemical binding]; other site 577650004455 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 577650004456 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 577650004457 putative active site [active] 577650004458 heme pocket [chemical binding]; other site 577650004459 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 577650004460 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 577650004461 putative active site [active] 577650004462 heme pocket [chemical binding]; other site 577650004463 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 577650004464 dimer interface [polypeptide binding]; other site 577650004465 phosphorylation site [posttranslational modification] 577650004466 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 577650004467 ATP binding site [chemical binding]; other site 577650004468 Mg2+ binding site [ion binding]; other site 577650004469 G-X-G motif; other site 577650004470 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 577650004471 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 577650004472 active site 577650004473 phosphorylation site [posttranslational modification] 577650004474 intermolecular recognition site; other site 577650004475 dimerization interface [polypeptide binding]; other site 577650004476 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]; Region: COG3357 577650004477 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 577650004478 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 577650004479 DNA methylase; Region: N6_N4_Mtase; pfam01555 577650004480 DNA methylase; Region: N6_N4_Mtase; pfam01555 577650004481 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 577650004482 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 577650004483 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 577650004484 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 577650004485 active site 577650004486 Int/Topo IB signature motif; other site 577650004487 catalytic residues [active] 577650004488 DNA binding site [nucleotide binding] 577650004489 molybdenum-pterin binding domain; Region: Mop; TIGR00638 577650004490 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 577650004491 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 577650004492 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 577650004493 ATP-sulfurylase; Region: ATPS; cd00517 577650004494 active site 577650004495 HXXH motif; other site 577650004496 flexible loop; other site 577650004497 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 577650004498 active site 577650004499 dimer interface [polypeptide binding]; other site 577650004500 metal binding site [ion binding]; metal-binding site 577650004501 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 577650004502 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 577650004503 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 577650004504 active site 577650004505 phosphorylation site [posttranslational modification] 577650004506 intermolecular recognition site; other site 577650004507 dimerization interface [polypeptide binding]; other site 577650004508 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 577650004509 Walker A motif; other site 577650004510 ATP binding site [chemical binding]; other site 577650004511 Walker B motif; other site 577650004512 arginine finger; other site 577650004513 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 577650004514 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 577650004515 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 577650004516 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 577650004517 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 577650004518 dimer interface [polypeptide binding]; other site 577650004519 phosphorylation site [posttranslational modification] 577650004520 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 577650004521 ATP binding site [chemical binding]; other site 577650004522 Mg2+ binding site [ion binding]; other site 577650004523 G-X-G motif; other site 577650004524 Sec63 Brl domain; Region: Sec63; pfam02889 577650004525 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 577650004526 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 577650004527 [4Fe-4S] binding site [ion binding]; other site 577650004528 molybdopterin cofactor binding site; other site 577650004529 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 577650004530 molybdopterin cofactor binding site; other site 577650004531 NapD protein; Region: NapD; pfam03927 577650004532 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 577650004533 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 577650004534 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 577650004535 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 577650004536 4Fe-4S binding domain; Region: Fer4_5; pfam12801 577650004537 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 577650004538 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 577650004539 putative ligand binding site [chemical binding]; other site 577650004540 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 577650004541 active site 577650004542 multimer interface [polypeptide binding]; other site 577650004543 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 577650004544 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 577650004545 Walker A/P-loop; other site 577650004546 ATP binding site [chemical binding]; other site 577650004547 Q-loop/lid; other site 577650004548 ABC transporter signature motif; other site 577650004549 Walker B; other site 577650004550 D-loop; other site 577650004551 H-loop/switch region; other site 577650004552 ABC transporter; Region: ABC_tran_2; pfam12848 577650004553 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 577650004554 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 577650004555 putative substrate translocation pore; other site 577650004556 Major Facilitator Superfamily; Region: MFS_1; pfam07690 577650004557 Transcriptional regulator [Transcription]; Region: LysR; COG0583 577650004558 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 577650004559 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 577650004560 dimerization interface [polypeptide binding]; other site 577650004561 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 577650004562 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 577650004563 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 577650004564 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 577650004565 N-terminal plug; other site 577650004566 ligand-binding site [chemical binding]; other site 577650004567 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 577650004568 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 577650004569 PYR/PP interface [polypeptide binding]; other site 577650004570 dimer interface [polypeptide binding]; other site 577650004571 TPP binding site [chemical binding]; other site 577650004572 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 577650004573 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 577650004574 TPP-binding site [chemical binding]; other site 577650004575 dimer interface [polypeptide binding]; other site 577650004576 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 577650004577 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; smart00790 577650004578 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 577650004579 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 577650004580 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 577650004581 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 577650004582 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 577650004583 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 577650004584 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 577650004585 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 577650004586 Sporulation related domain; Region: SPOR; pfam05036 577650004587 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 577650004588 active site 577650004589 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 577650004590 active site 577650004591 ribulose/triose binding site [chemical binding]; other site 577650004592 phosphate binding site [ion binding]; other site 577650004593 substrate (anthranilate) binding pocket [chemical binding]; other site 577650004594 product (indole) binding pocket [chemical binding]; other site 577650004595 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 577650004596 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 577650004597 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 577650004598 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 577650004599 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 577650004600 glutamine binding [chemical binding]; other site 577650004601 catalytic triad [active] 577650004602 anthranilate synthase component I; Provisional; Region: PRK13565 577650004603 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 577650004604 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 577650004605 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 577650004606 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 577650004607 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 577650004608 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 577650004609 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 577650004610 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 577650004611 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 577650004612 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 577650004613 putative active site [active] 577650004614 heme pocket [chemical binding]; other site 577650004615 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 577650004616 putative active site [active] 577650004617 heme pocket [chemical binding]; other site 577650004618 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 577650004619 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 577650004620 dimer interface [polypeptide binding]; other site 577650004621 phosphorylation site [posttranslational modification] 577650004622 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 577650004623 ATP binding site [chemical binding]; other site 577650004624 Mg2+ binding site [ion binding]; other site 577650004625 G-X-G motif; other site 577650004626 Response regulator receiver domain; Region: Response_reg; pfam00072 577650004627 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 577650004628 active site 577650004629 phosphorylation site [posttranslational modification] 577650004630 intermolecular recognition site; other site 577650004631 dimerization interface [polypeptide binding]; other site 577650004632 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 577650004633 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 577650004634 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 577650004635 active site 577650004636 phosphorylation site [posttranslational modification] 577650004637 intermolecular recognition site; other site 577650004638 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 577650004639 Walker A motif; other site 577650004640 ATP binding site [chemical binding]; other site 577650004641 Walker B motif; other site 577650004642 arginine finger; other site 577650004643 Ribosomally synthesized peptide prototyped by Frankia Franean1_4349; Region: Frankia_peptide; pfam14407 577650004644 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 577650004645 Cache domain; Region: Cache_1; pfam02743 577650004646 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 577650004647 dimerization interface [polypeptide binding]; other site 577650004648 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 577650004649 PAS domain; Region: PAS_9; pfam13426 577650004650 putative active site [active] 577650004651 heme pocket [chemical binding]; other site 577650004652 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 577650004653 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 577650004654 metal binding site [ion binding]; metal-binding site 577650004655 active site 577650004656 I-site; other site 577650004657 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 577650004658 Cache domain; Region: Cache_1; pfam02743 577650004659 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 577650004660 dimerization interface [polypeptide binding]; other site 577650004661 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 577650004662 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 577650004663 dimer interface [polypeptide binding]; other site 577650004664 putative CheW interface [polypeptide binding]; other site 577650004665 PAS domain S-box; Region: sensory_box; TIGR00229 577650004666 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 577650004667 putative active site [active] 577650004668 heme pocket [chemical binding]; other site 577650004669 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 577650004670 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 577650004671 putative active site [active] 577650004672 heme pocket [chemical binding]; other site 577650004673 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 577650004674 dimer interface [polypeptide binding]; other site 577650004675 phosphorylation site [posttranslational modification] 577650004676 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 577650004677 ATP binding site [chemical binding]; other site 577650004678 Mg2+ binding site [ion binding]; other site 577650004679 G-X-G motif; other site 577650004680 Response regulator receiver domain; Region: Response_reg; pfam00072 577650004681 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 577650004682 active site 577650004683 phosphorylation site [posttranslational modification] 577650004684 intermolecular recognition site; other site 577650004685 dimerization interface [polypeptide binding]; other site 577650004686 Protein of unknown function (DUF3999); Region: DUF3999; pfam13163 577650004687 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 577650004688 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 577650004689 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 577650004690 HDOD domain; Region: HDOD; pfam08668 577650004691 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 577650004692 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 577650004693 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 577650004694 metal binding site [ion binding]; metal-binding site 577650004695 active site 577650004696 I-site; other site 577650004697 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 577650004698 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 577650004699 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 577650004700 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 577650004701 active site 577650004702 dimer interface [polypeptide binding]; other site 577650004703 motif 1; other site 577650004704 motif 2; other site 577650004705 motif 3; other site 577650004706 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 577650004707 anticodon binding site; other site 577650004708 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 577650004709 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 577650004710 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 577650004711 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 577650004712 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 577650004713 23S rRNA binding site [nucleotide binding]; other site 577650004714 L21 binding site [polypeptide binding]; other site 577650004715 L13 binding site [polypeptide binding]; other site 577650004716 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 577650004717 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 577650004718 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 577650004719 dimer interface [polypeptide binding]; other site 577650004720 motif 1; other site 577650004721 active site 577650004722 motif 2; other site 577650004723 motif 3; other site 577650004724 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 577650004725 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 577650004726 putative tRNA-binding site [nucleotide binding]; other site 577650004727 B3/4 domain; Region: B3_4; pfam03483 577650004728 tRNA synthetase B5 domain; Region: B5; pfam03484 577650004729 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 577650004730 dimer interface [polypeptide binding]; other site 577650004731 motif 1; other site 577650004732 motif 3; other site 577650004733 motif 2; other site 577650004734 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 577650004735 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 577650004736 IHF dimer interface [polypeptide binding]; other site 577650004737 IHF - DNA interface [nucleotide binding]; other site 577650004738 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 577650004739 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 577650004740 DNA binding residues [nucleotide binding] 577650004741 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 577650004742 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 577650004743 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 577650004744 active site 577650004745 catalytic residues [active] 577650004746 DNA binding site [nucleotide binding] 577650004747 Int/Topo IB signature motif; other site 577650004748 RHS Repeat; Region: RHS_repeat; cl11982 577650004749 RHS Repeat; Region: RHS_repeat; cl11982 577650004750 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 577650004751 RHS Repeat; Region: RHS_repeat; pfam05593 577650004752 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 577650004753 RHS Repeat; Region: RHS_repeat; pfam05593 577650004754 RHS Repeat; Region: RHS_repeat; cl11982 577650004755 RHS Repeat; Region: RHS_repeat; pfam05593 577650004756 RHS Repeat; Region: RHS_repeat; pfam05593 577650004757 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 577650004758 Cna protein B-type domain; Region: Cna_B; pfam05738 577650004759 RHS protein; Region: RHS; pfam03527 577650004760 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 577650004761 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 577650004762 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 577650004763 Cna protein B-type domain; Region: Cna_B; pfam05738 577650004764 RHS protein; Region: RHS; pfam03527 577650004765 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 577650004766 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 577650004767 Cna protein B-type domain; Region: Cna_B; pfam05738 577650004768 RHS protein; Region: RHS; pfam03527 577650004769 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 577650004770 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 577650004771 Dinitrogenase iron-molybdenum cofactor; Region: Nitro_FeMo-Co; pfam02579 577650004772 NLPC_P60 stabilising domain, N term; Region: N_NLPC_P60; pfam12912 577650004773 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 577650004774 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 577650004775 NlpC/P60 family; Region: NLPC_P60; cl17555 577650004776 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 577650004777 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 577650004778 Coenzyme A binding pocket [chemical binding]; other site 577650004779 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 577650004780 L-lactate permease; Region: Lactate_perm; cl00701 577650004781 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 577650004782 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 577650004783 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 577650004784 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 577650004785 RNA binding site [nucleotide binding]; other site 577650004786 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 577650004787 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 577650004788 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 577650004789 Hemerythrin-like domain; Region: Hr-like; cd12108 577650004790 Fe binding site [ion binding]; other site 577650004791 Uncharacterized conserved protein [Function unknown]; Region: COG3189 577650004792 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 577650004793 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 577650004794 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 577650004795 PAS domain S-box; Region: sensory_box; TIGR00229 577650004796 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 577650004797 putative active site [active] 577650004798 heme pocket [chemical binding]; other site 577650004799 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 577650004800 hybrid cluster protein; Provisional; Region: PRK05290 577650004801 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 577650004802 ACS interaction site; other site 577650004803 CODH interaction site; other site 577650004804 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 577650004805 hybrid metal cluster; other site 577650004806 HPP family; Region: HPP; pfam04982 577650004807 FOG: CBS domain [General function prediction only]; Region: COG0517 577650004808 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 577650004809 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 577650004810 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 577650004811 substrate binding pocket [chemical binding]; other site 577650004812 membrane-bound complex binding site; other site 577650004813 hinge residues; other site 577650004814 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 577650004815 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 577650004816 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 577650004817 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 577650004818 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 577650004819 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 577650004820 catalytic motif [active] 577650004821 Zn binding site [ion binding]; other site 577650004822 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 577650004823 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 577650004824 ATP binding site [chemical binding]; other site 577650004825 Mg++ binding site [ion binding]; other site 577650004826 motif III; other site 577650004827 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 577650004828 nucleotide binding region [chemical binding]; other site 577650004829 ATP-binding site [chemical binding]; other site 577650004830 Domain of unknown function (DUF202); Region: DUF202; cl09954 577650004831 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 577650004832 Ligand Binding Site [chemical binding]; other site 577650004833 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 577650004834 Ligand Binding Site [chemical binding]; other site 577650004835 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 577650004836 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 577650004837 Ligand Binding Site [chemical binding]; other site 577650004838 Response regulator receiver domain; Region: Response_reg; pfam00072 577650004839 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 577650004840 active site 577650004841 phosphorylation site [posttranslational modification] 577650004842 intermolecular recognition site; other site 577650004843 dimerization interface [polypeptide binding]; other site 577650004844 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 577650004845 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 577650004846 Walker A motif; other site 577650004847 ATP binding site [chemical binding]; other site 577650004848 Walker B motif; other site 577650004849 arginine finger; other site 577650004850 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 577650004851 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 577650004852 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 577650004853 active site 577650004854 phosphorylation site [posttranslational modification] 577650004855 intermolecular recognition site; other site 577650004856 dimerization interface [polypeptide binding]; other site 577650004857 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 577650004858 Walker A motif; other site 577650004859 ATP binding site [chemical binding]; other site 577650004860 Walker B motif; other site 577650004861 arginine finger; other site 577650004862 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 577650004863 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 577650004864 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 577650004865 dimerization interface [polypeptide binding]; other site 577650004866 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 577650004867 dimer interface [polypeptide binding]; other site 577650004868 phosphorylation site [posttranslational modification] 577650004869 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 577650004870 ATP binding site [chemical binding]; other site 577650004871 Mg2+ binding site [ion binding]; other site 577650004872 G-X-G motif; other site 577650004873 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 577650004874 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 577650004875 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 577650004876 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 577650004877 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 577650004878 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 577650004879 Walker A/P-loop; other site 577650004880 ATP binding site [chemical binding]; other site 577650004881 Q-loop/lid; other site 577650004882 ABC transporter signature motif; other site 577650004883 Walker B; other site 577650004884 D-loop; other site 577650004885 H-loop/switch region; other site 577650004886 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 577650004887 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 577650004888 Walker A/P-loop; other site 577650004889 ATP binding site [chemical binding]; other site 577650004890 Q-loop/lid; other site 577650004891 ABC transporter signature motif; other site 577650004892 Walker B; other site 577650004893 D-loop; other site 577650004894 H-loop/switch region; other site 577650004895 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 577650004896 substrate binding site [chemical binding]; other site 577650004897 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 577650004898 30S subunit binding site; other site 577650004899 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 577650004900 DNA-binding site [nucleotide binding]; DNA binding site 577650004901 RNA-binding motif; other site 577650004902 Predicted transcriptional regulator [Transcription]; Region: COG2378 577650004903 WYL domain; Region: WYL; pfam13280 577650004904 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 577650004905 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 577650004906 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 577650004907 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-C; cd09752 577650004908 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 577650004909 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cd09757 577650004910 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cd09689 577650004911 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 577650004912 Fic/DOC family; Region: Fic; pfam02661 577650004913 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cd09637 577650004914 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-C; cd09721 577650004915 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 577650004916 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 577650004917 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 577650004918 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 577650004919 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 577650004920 E3 interaction surface; other site 577650004921 lipoyl attachment site [posttranslational modification]; other site 577650004922 e3 binding domain; Region: E3_binding; pfam02817 577650004923 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 577650004924 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 577650004925 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 577650004926 alpha subunit interface [polypeptide binding]; other site 577650004927 TPP binding site [chemical binding]; other site 577650004928 heterodimer interface [polypeptide binding]; other site 577650004929 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 577650004930 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 577650004931 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 577650004932 tetramer interface [polypeptide binding]; other site 577650004933 TPP-binding site [chemical binding]; other site 577650004934 heterodimer interface [polypeptide binding]; other site 577650004935 phosphorylation loop region [posttranslational modification] 577650004936 acetyl-CoA synthetase; Provisional; Region: PRK04319 577650004937 Uncharacterized subfamily of Acetyl-CoA synthetase like family (ACS); Region: MACS_like_4; cd05969 577650004938 active site 577650004939 acyl-activating enzyme (AAE) consensus motif; other site 577650004940 putative CoA binding site [chemical binding]; other site 577650004941 AMP binding site [chemical binding]; other site 577650004942 chaperone protein DnaJ; Provisional; Region: PRK14292 577650004943 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 577650004944 Citrate synthase; Region: Citrate_synt; pfam00285 577650004945 oxalacetate binding site [chemical binding]; other site 577650004946 citrylCoA binding site [chemical binding]; other site 577650004947 coenzyme A binding site [chemical binding]; other site 577650004948 catalytic triad [active] 577650004949 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 577650004950 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 577650004951 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 577650004952 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 577650004953 TIR domain; Region: TIR_2; pfam13676 577650004954 TIR domain; Region: TIR_2; cl17458 577650004955 AAA ATPase domain; Region: AAA_16; pfam13191 577650004956 Sulfatase; Region: Sulfatase; cl17466 577650004957 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 577650004958 dimer interface [polypeptide binding]; other site 577650004959 catalytic triad [active] 577650004960 pantothenate kinase; Reviewed; Region: PRK13318 577650004961 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 577650004962 DNA polymerase II large subunit; Provisional; Region: PRK14714 577650004963 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 577650004964 putative metal binding site [ion binding]; other site 577650004965 Uncharacterized conserved protein [Function unknown]; Region: COG1432 577650004966 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 577650004967 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 577650004968 RNA binding site [nucleotide binding]; other site 577650004969 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 577650004970 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 577650004971 Mg2+ binding site [ion binding]; other site 577650004972 G-X-G motif; other site 577650004973 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 577650004974 anchoring element; other site 577650004975 dimer interface [polypeptide binding]; other site 577650004976 ATP binding site [chemical binding]; other site 577650004977 TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands...; Region: TOPRIM_TopoIIA_like; cd01030 577650004978 active site 577650004979 putative metal-binding site [ion binding]; other site 577650004980 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 577650004981 DNA topoisomerase IV subunit A; Provisional; Region: PRK09631 577650004982 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cl00148 577650004983 CAP-like domain; other site 577650004984 active site 577650004985 primary dimer interface [polypeptide binding]; other site 577650004986 AIPR protein; Region: AIPR; pfam10592 577650004987 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 577650004988 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII; cd09992 577650004989 active site 577650004990 Zn binding site [ion binding]; other site 577650004991 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 577650004992 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 577650004993 dimerization interface [polypeptide binding]; other site 577650004994 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 577650004995 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 577650004996 dimer interface [polypeptide binding]; other site 577650004997 putative CheW interface [polypeptide binding]; other site 577650004998 PilZ domain; Region: PilZ; pfam07238 577650004999 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 577650005000 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 577650005001 Walker A motif; other site 577650005002 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 577650005003 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 577650005004 oligomer interface [polypeptide binding]; other site 577650005005 metal binding site [ion binding]; metal-binding site 577650005006 metal binding site [ion binding]; metal-binding site 577650005007 Cl binding site [ion binding]; other site 577650005008 aspartate ring; other site 577650005009 basic sphincter; other site 577650005010 putative hydrophobic gate; other site 577650005011 periplasmic entrance; other site 577650005012 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 577650005013 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 577650005014 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 577650005015 active site 577650005016 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 577650005017 active site 577650005018 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 577650005019 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 577650005020 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 577650005021 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 577650005022 putative active site [active] 577650005023 heme pocket [chemical binding]; other site 577650005024 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 577650005025 dimer interface [polypeptide binding]; other site 577650005026 phosphorylation site [posttranslational modification] 577650005027 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 577650005028 ATP binding site [chemical binding]; other site 577650005029 Mg2+ binding site [ion binding]; other site 577650005030 G-X-G motif; other site 577650005031 Response regulator receiver domain; Region: Response_reg; pfam00072 577650005032 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 577650005033 active site 577650005034 phosphorylation site [posttranslational modification] 577650005035 intermolecular recognition site; other site 577650005036 dimerization interface [polypeptide binding]; other site 577650005037 agmatinase; Region: agmatinase; TIGR01230 577650005038 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 577650005039 active site 577650005040 metal binding site [ion binding]; metal-binding site 577650005041 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 577650005042 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 577650005043 Walker A/P-loop; other site 577650005044 ATP binding site [chemical binding]; other site 577650005045 Q-loop/lid; other site 577650005046 ABC transporter signature motif; other site 577650005047 Walker B; other site 577650005048 D-loop; other site 577650005049 H-loop/switch region; other site 577650005050 TOBE domain; Region: TOBE_2; pfam08402 577650005051 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 577650005052 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 577650005053 dimer interface [polypeptide binding]; other site 577650005054 conserved gate region; other site 577650005055 putative PBP binding loops; other site 577650005056 ABC-ATPase subunit interface; other site 577650005057 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 577650005058 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 577650005059 dimer interface [polypeptide binding]; other site 577650005060 conserved gate region; other site 577650005061 putative PBP binding loops; other site 577650005062 ABC-ATPase subunit interface; other site 577650005063 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 577650005064 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 577650005065 TIGR00268 family protein; Region: TIGR00268 577650005066 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine 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_I; cd01990 577650005067 Ligand Binding Site [chemical binding]; other site 577650005068 Hemerythrin; Region: Hemerythrin; cd12107 577650005069 Fe binding site [ion binding]; other site 577650005070 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 577650005071 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 577650005072 homodimer interface [polypeptide binding]; other site 577650005073 Walker A motif; other site 577650005074 ATP binding site [chemical binding]; other site 577650005075 hydroxycobalamin binding site [chemical binding]; other site 577650005076 Walker B motif; other site 577650005077 Predicted amidohydrolase [General function prediction only]; Region: COG0388 577650005078 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 577650005079 active site 577650005080 catalytic triad [active] 577650005081 dimer interface [polypeptide binding]; other site 577650005082 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 577650005083 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 577650005084 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 577650005085 TrkA-N domain; Region: TrkA_N; pfam02254 577650005086 TrkA-C domain; Region: TrkA_C; pfam02080 577650005087 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 577650005088 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 577650005089 intracellular septation protein A; Reviewed; Region: PRK00259 577650005090 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; pfam02156 577650005091 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 577650005092 active site 577650005093 Catalytic NodB homology domain of uncharacterized bacterial glycosyl transferase, group 2-like family proteins; Region: CE4_GT2-like; cd10962 577650005094 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 577650005095 NodB motif; other site 577650005096 putative active site [active] 577650005097 putative catalytic site [active] 577650005098 putative Zn binding site [ion binding]; other site 577650005099 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 577650005100 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 577650005101 DXD motif; other site 577650005102 YibE/F-like protein; Region: YibE_F; pfam07907 577650005103 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 577650005104 Alkaline phosphatase homologues; Region: alkPPc; smart00098 577650005105 active site 577650005106 dimer interface [polypeptide binding]; other site 577650005107 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 577650005108 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 577650005109 dimerization interface [polypeptide binding]; other site 577650005110 putative DNA binding site [nucleotide binding]; other site 577650005111 putative Zn2+ binding site [ion binding]; other site 577650005112 Predicted permeases [General function prediction only]; Region: COG0701 577650005113 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 577650005114 Transglycosylase; Region: Transgly; pfam00912 577650005115 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 577650005116 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 577650005117 IgD-like repeat domain of mycobacterial L,D-transpeptidases; Region: LDT_IgD_like; cl17506 577650005118 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 577650005119 MG2 domain; Region: A2M_N; pfam01835 577650005120 Alpha-2-macroglobulin family; Region: A2M; pfam00207 577650005121 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 577650005122 surface patch; other site 577650005123 thioester region; other site 577650005124 specificity defining residues; other site 577650005125 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 577650005126 Coenzyme A binding pocket [chemical binding]; other site 577650005127 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 577650005128 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 577650005129 FOG: CBS domain [General function prediction only]; Region: COG0517 577650005130 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce...; Region: CBS_pair_ACT_assoc2; cd04585 577650005131 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 577650005132 Protein of unknown function (DUF342); Region: DUF342; pfam03961 577650005133 uracil transporter; Provisional; Region: PRK10720 577650005134 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 577650005135 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 577650005136 active site 577650005137 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 577650005138 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 577650005139 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 577650005140 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 577650005141 Part of AAA domain; Region: AAA_19; pfam13245 577650005142 Family description; Region: UvrD_C_2; pfam13538 577650005143 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 577650005144 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 577650005145 metal binding site [ion binding]; metal-binding site 577650005146 active site 577650005147 I-site; other site 577650005148 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 577650005149 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 577650005150 TM2 domain; Region: TM2; cl00984 577650005151 TM2 domain; Region: TM2; pfam05154 577650005152 Protein of unknown function (DUF328); Region: DUF328; pfam03883 577650005153 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 577650005154 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 577650005155 metal binding site [ion binding]; metal-binding site 577650005156 active site 577650005157 I-site; other site 577650005158 Protein of unknown function (DUF493); Region: DUF493; pfam04359 577650005159 Smr domain; Region: Smr; pfam01713 577650005160 Putative capsular polysaccharide synthesis protein; Region: NKWYS; pfam10364 577650005161 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 577650005162 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 577650005163 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 577650005164 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 577650005165 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 577650005166 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 577650005167 Walker A/P-loop; other site 577650005168 ATP binding site [chemical binding]; other site 577650005169 Q-loop/lid; other site 577650005170 ABC transporter signature motif; other site 577650005171 Walker B; other site 577650005172 D-loop; other site 577650005173 H-loop/switch region; other site 577650005174 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 577650005175 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 577650005176 Walker A/P-loop; other site 577650005177 ATP binding site [chemical binding]; other site 577650005178 Q-loop/lid; other site 577650005179 ABC transporter signature motif; other site 577650005180 Walker B; other site 577650005181 D-loop; other site 577650005182 H-loop/switch region; other site 577650005183 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 577650005184 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 577650005185 TM-ABC transporter signature motif; other site 577650005186 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 577650005187 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 577650005188 TM-ABC transporter signature motif; other site 577650005189 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 577650005190 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 577650005191 dimerization interface [polypeptide binding]; other site 577650005192 ligand binding site [chemical binding]; other site 577650005193 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 577650005194 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 577650005195 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 577650005196 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 577650005197 pyrroline-5-carboxylate reductase; Region: PLN02688 577650005198 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 577650005199 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 577650005200 ATP-NAD kinase; Region: NAD_kinase; pfam01513 577650005201 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 577650005202 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 577650005203 ATP binding site [chemical binding]; other site 577650005204 putative Mg++ binding site [ion binding]; other site 577650005205 helicase superfamily c-terminal domain; Region: HELICc; smart00490 577650005206 Helicase associated domain (HA2); Region: HA2; pfam04408 577650005207 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 577650005208 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 577650005209 binding surface 577650005210 TPR motif; other site 577650005211 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 577650005212 binding surface 577650005213 TPR repeat; Region: TPR_11; pfam13414 577650005214 TPR motif; other site 577650005215 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 577650005216 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 577650005217 S-adenosylmethionine binding site [chemical binding]; other site 577650005218 Peptidase C1A subfamily (MEROPS database nomenclature); composed of cysteine peptidases (CPs) similar to papain, including the mammalian CPs (cathepsins B, C, F, H, L, K, O, S, V, X and W). Papain is an endopeptidase with specific substrate preferences; Region: Peptidase_C1A; cd02248 577650005219 active site 577650005220 S2 subsite; other site 577650005221 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 577650005222 Autotransporter beta-domain; Region: Autotransporter; smart00869 577650005223 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 577650005224 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 577650005225 putative dimer interface [polypeptide binding]; other site 577650005226 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 577650005227 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 577650005228 putative dimer interface [polypeptide binding]; other site 577650005229 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 577650005230 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 577650005231 putative dimer interface [polypeptide binding]; other site 577650005232 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 577650005233 CoA binding domain; Region: CoA_binding; pfam02629 577650005234 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 577650005235 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 577650005236 putative dimer interface [polypeptide binding]; other site 577650005237 [2Fe-2S] cluster binding site [ion binding]; other site 577650005238 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 577650005239 dimer interface [polypeptide binding]; other site 577650005240 [2Fe-2S] cluster binding site [ion binding]; other site 577650005241 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 577650005242 SLBB domain; Region: SLBB; pfam10531 577650005243 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 577650005244 4Fe-4S binding domain; Region: Fer4; pfam00037 577650005245 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 577650005246 catalytic loop [active] 577650005247 iron binding site [ion binding]; other site 577650005248 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 577650005249 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 577650005250 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 577650005251 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 577650005252 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 577650005253 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 577650005254 dimer interface [polypeptide binding]; other site 577650005255 [2Fe-2S] cluster binding site [ion binding]; other site 577650005256 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 577650005257 Aspartase; Region: Aspartase; cd01357 577650005258 active sites [active] 577650005259 tetramer interface [polypeptide binding]; other site 577650005260 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 577650005261 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 577650005262 G1 box; other site 577650005263 GTP/Mg2+ binding site [chemical binding]; other site 577650005264 Switch I region; other site 577650005265 G2 box; other site 577650005266 Switch II region; other site 577650005267 G3 box; other site 577650005268 G4 box; other site 577650005269 G5 box; other site 577650005270 biotin synthase; Provisional; Region: PRK07094 577650005271 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 577650005272 FeS/SAM binding site; other site 577650005273 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 577650005274 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 577650005275 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 577650005276 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 577650005277 Putative Fe-S cluster; Region: FeS; cl17515 577650005278 PAS domain; Region: PAS; smart00091 577650005279 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 577650005280 Peptidase M15; Region: Peptidase_M15_3; cl01194 577650005281 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 577650005282 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 577650005283 ATP binding site [chemical binding]; other site 577650005284 putative Mg++ binding site [ion binding]; other site 577650005285 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 577650005286 nucleotide binding region [chemical binding]; other site 577650005287 Helicase associated domain (HA2); Region: HA2; pfam04408 577650005288 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 577650005289 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 577650005290 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 577650005291 active site 577650005292 tetramer interface; other site 577650005293 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 577650005294 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 577650005295 ATP binding site [chemical binding]; other site 577650005296 putative Mg++ binding site [ion binding]; other site 577650005297 Tetracycline resistance leader peptide; Region: Tet_res_leader; pfam08050 577650005298 helicase superfamily c-terminal domain; Region: HELICc; smart00490 577650005299 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 577650005300 PAS domain; Region: PAS; smart00091 577650005301 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 577650005302 putative active site [active] 577650005303 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 577650005304 dimer interface [polypeptide binding]; other site 577650005305 phosphorylation site [posttranslational modification] 577650005306 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 577650005307 ATP binding site [chemical binding]; other site 577650005308 Mg2+ binding site [ion binding]; other site 577650005309 G-X-G motif; other site 577650005310 hypothetical protein; Validated; Region: PRK00228 577650005311 Flagellin N-methylase; Region: FliB; pfam03692 577650005312 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 577650005313 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 577650005314 putative methanogenesis marker protein 1; Region: methan_mark_1; TIGR03266 577650005315 YcaO-like family; Region: YcaO; pfam02624 577650005316 TPR repeat; Region: TPR_11; pfam13414 577650005317 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 577650005318 binding surface 577650005319 TPR motif; other site 577650005320 TPR repeat; Region: TPR_11; pfam13414 577650005321 Tetratricopeptide repeat; Region: TPR_16; pfam13432 577650005322 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 577650005323 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 577650005324 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 577650005325 putative active site [active] 577650005326 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 577650005327 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 577650005328 active site 577650005329 motif I; other site 577650005330 motif II; other site 577650005331 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 577650005332 Repair protein; Region: Repair_PSII; pfam04536 577650005333 Repair protein; Region: Repair_PSII; cl01535 577650005334 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 577650005335 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 577650005336 active site 577650005337 catalytic site [active] 577650005338 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 577650005339 active site 577650005340 catalytic site [active] 577650005341 substrate binding site [chemical binding]; other site 577650005342 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 577650005343 catalytic core [active] 577650005344 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 577650005345 Ligand binding site; other site 577650005346 metal-binding site 577650005347 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 577650005348 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 577650005349 XdhC Rossmann domain; Region: XdhC_C; pfam13478 577650005350 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 577650005351 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 577650005352 acyl-activating enzyme (AAE) consensus motif; other site 577650005353 active site 577650005354 AMP binding site [chemical binding]; other site 577650005355 CoA binding site [chemical binding]; other site 577650005356 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG1964 577650005357 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 577650005358 FeS/SAM binding site; other site 577650005359 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 577650005360 Methyltransferase domain; Region: Methyltransf_31; pfam13847 577650005361 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 577650005362 S-adenosylmethionine binding site [chemical binding]; other site 577650005363 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 577650005364 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 577650005365 Cysteine-rich domain; Region: CCG; pfam02754 577650005366 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 577650005367 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 577650005368 catalytic loop [active] 577650005369 iron binding site [ion binding]; other site 577650005370 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 577650005371 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 577650005372 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 577650005373 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 577650005374 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 577650005375 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 577650005376 dimer interface [polypeptide binding]; other site 577650005377 active site 577650005378 metal binding site [ion binding]; metal-binding site 577650005379 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 577650005380 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 577650005381 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 577650005382 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 577650005383 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 577650005384 catalytic residues [active] 577650005385 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 577650005386 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 577650005387 putative active site pocket [active] 577650005388 dimerization interface [polypeptide binding]; other site 577650005389 putative catalytic residue [active] 577650005390 benzoate transport; Region: 2A0115; TIGR00895 577650005391 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 577650005392 putative substrate translocation pore; other site 577650005393 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 577650005394 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 577650005395 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 577650005396 Histidine kinase; Region: HisKA_3; pfam07730 577650005397 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 577650005398 ATP binding site [chemical binding]; other site 577650005399 Mg2+ binding site [ion binding]; other site 577650005400 G-X-G motif; other site 577650005401 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 577650005402 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 577650005403 active site 577650005404 phosphorylation site [posttranslational modification] 577650005405 intermolecular recognition site; other site 577650005406 dimerization interface [polypeptide binding]; other site 577650005407 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 577650005408 DNA binding residues [nucleotide binding] 577650005409 dimerization interface [polypeptide binding]; other site 577650005410 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 577650005411 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 577650005412 IHF dimer interface [polypeptide binding]; other site 577650005413 IHF - DNA interface [nucleotide binding]; other site 577650005414 thioredoxin 2; Provisional; Region: PRK10996 577650005415 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 577650005416 catalytic residues [active] 577650005417 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 577650005418 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 577650005419 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 577650005420 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 577650005421 Walker A/P-loop; other site 577650005422 ATP binding site [chemical binding]; other site 577650005423 Q-loop/lid; other site 577650005424 ABC transporter signature motif; other site 577650005425 Walker B; other site 577650005426 D-loop; other site 577650005427 H-loop/switch region; other site 577650005428 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 577650005429 FtsX-like permease family; Region: FtsX; pfam02687 577650005430 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 577650005431 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 577650005432 HlyD family secretion protein; Region: HlyD_3; pfam13437 577650005433 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 577650005434 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 577650005435 dimerization interface [polypeptide binding]; other site 577650005436 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 577650005437 dimer interface [polypeptide binding]; other site 577650005438 phosphorylation site [posttranslational modification] 577650005439 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 577650005440 ATP binding site [chemical binding]; other site 577650005441 Mg2+ binding site [ion binding]; other site 577650005442 G-X-G motif; other site 577650005443 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 577650005444 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 577650005445 active site 577650005446 phosphorylation site [posttranslational modification] 577650005447 intermolecular recognition site; other site 577650005448 dimerization interface [polypeptide binding]; other site 577650005449 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 577650005450 DNA binding site [nucleotide binding] 577650005451 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 577650005452 putative hydrolase; Provisional; Region: PRK11460 577650005453 Predicted membrane protein (DUF2157); Region: DUF2157; pfam09925 577650005454 Lipase. 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 process of...; Region: Lipase; cl14883 577650005455 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 577650005456 nucleophilic elbow; other site 577650005457 catalytic triad; other site 577650005458 Roadblock/LC7 domain; Region: Robl_LC7; smart00960 577650005459 GTPase SAR1 and related small G proteins [General function prediction only]; Region: COG1100 577650005460 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 577650005461 G1 box; other site 577650005462 GTP/Mg2+ binding site [chemical binding]; other site 577650005463 G2 box; other site 577650005464 Switch I region; other site 577650005465 G3 box; other site 577650005466 Switch II region; other site 577650005467 G4 box; other site 577650005468 G5 box; other site 577650005469 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 577650005470 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 577650005471 dimer interface [polypeptide binding]; other site 577650005472 conserved gate region; other site 577650005473 putative PBP binding loops; other site 577650005474 ABC-ATPase subunit interface; other site 577650005475 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 577650005476 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 577650005477 dimer interface [polypeptide binding]; other site 577650005478 conserved gate region; other site 577650005479 putative PBP binding loops; other site 577650005480 ABC-ATPase subunit interface; other site 577650005481 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 577650005482 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 577650005483 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 577650005484 pyridoxal 5'-phosphate binding site [chemical binding]; other site 577650005485 homodimer interface [polypeptide binding]; other site 577650005486 catalytic residue [active] 577650005487 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 577650005488 catalytic core [active] 577650005489 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 577650005490 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 577650005491 P-loop; other site 577650005492 Magnesium ion binding site [ion binding]; other site 577650005493 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 577650005494 Magnesium ion binding site [ion binding]; other site 577650005495 CHAD domain; Region: CHAD; pfam05235 577650005496 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 577650005497 heterotetramer interface [polypeptide binding]; other site 577650005498 active site pocket [active] 577650005499 cleavage site 577650005500 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 577650005501 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 577650005502 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 577650005503 putative active site [active] 577650005504 catalytic site [active] 577650005505 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 577650005506 putative active site [active] 577650005507 catalytic site [active] 577650005508 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 577650005509 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 577650005510 active site 577650005511 metal binding site [ion binding]; metal-binding site 577650005512 homotetramer interface [polypeptide binding]; other site 577650005513 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 577650005514 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 577650005515 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 577650005516 chromosome condensation membrane protein; Provisional; Region: PRK14196 577650005517 GGGtGRT protein; Region: GGGtGRT; pfam14057 577650005518 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 577650005519 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cl00528 577650005520 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 577650005521 Major Facilitator Superfamily; Region: MFS_1; pfam07690 577650005522 putative substrate translocation pore; other site 577650005523 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG1689 577650005524 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; cl08267 577650005525 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 577650005526 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 577650005527 catalytic residues [active] 577650005528 catalytic nucleophile [active] 577650005529 Presynaptic Site I dimer interface [polypeptide binding]; other site 577650005530 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 577650005531 Synaptic Flat tetramer interface [polypeptide binding]; other site 577650005532 Synaptic Site I dimer interface [polypeptide binding]; other site 577650005533 DNA binding site [nucleotide binding] 577650005534 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 577650005535 DNA-binding interface [nucleotide binding]; DNA binding site 577650005536 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 577650005537 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 577650005538 Glutaredoxin and related proteins [Posttranslational modification, protein turnover, chaperones]; Region: GrxC; COG0695 577650005539 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 577650005540 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 577650005541 active site 577650005542 phosphorylation site [posttranslational modification] 577650005543 intermolecular recognition site; other site 577650005544 dimerization interface [polypeptide binding]; other site 577650005545 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 577650005546 Walker A motif; other site 577650005547 ATP binding site [chemical binding]; other site 577650005548 Walker B motif; other site 577650005549 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 577650005550 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 577650005551 active site 577650005552 phosphorylation site [posttranslational modification] 577650005553 intermolecular recognition site; other site 577650005554 dimerization interface [polypeptide binding]; other site 577650005555 PAS fold; Region: PAS_4; pfam08448 577650005556 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 577650005557 putative active site [active] 577650005558 heme pocket [chemical binding]; other site 577650005559 PAS domain; Region: PAS_8; pfam13188 577650005560 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 577650005561 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 577650005562 dimer interface [polypeptide binding]; other site 577650005563 phosphorylation site [posttranslational modification] 577650005564 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 577650005565 ATP binding site [chemical binding]; other site 577650005566 Mg2+ binding site [ion binding]; other site 577650005567 G-X-G motif; other site 577650005568 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 577650005569 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 577650005570 active site 577650005571 phosphorylation site [posttranslational modification] 577650005572 intermolecular recognition site; other site 577650005573 dimerization interface [polypeptide binding]; other site 577650005574 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 577650005575 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 577650005576 active site 577650005577 phosphorylation site [posttranslational modification] 577650005578 intermolecular recognition site; other site 577650005579 dimerization interface [polypeptide binding]; other site 577650005580 PAS domain S-box; Region: sensory_box; TIGR00229 577650005581 PAS domain; Region: PAS; smart00091 577650005582 PAS domain; Region: PAS_9; pfam13426 577650005583 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 577650005584 putative active site [active] 577650005585 heme pocket [chemical binding]; other site 577650005586 PAS domain S-box; Region: sensory_box; TIGR00229 577650005587 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 577650005588 putative active site [active] 577650005589 heme pocket [chemical binding]; other site 577650005590 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 577650005591 dimer interface [polypeptide binding]; other site 577650005592 phosphorylation site [posttranslational modification] 577650005593 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 577650005594 ATP binding site [chemical binding]; other site 577650005595 Mg2+ binding site [ion binding]; other site 577650005596 G-X-G motif; other site 577650005597 PAS domain S-box; Region: sensory_box; TIGR00229 577650005598 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 577650005599 putative active site [active] 577650005600 heme pocket [chemical binding]; other site 577650005601 PAS domain S-box; Region: sensory_box; TIGR00229 577650005602 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 577650005603 putative active site [active] 577650005604 heme pocket [chemical binding]; other site 577650005605 PAS domain S-box; Region: sensory_box; TIGR00229 577650005606 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 577650005607 heme pocket [chemical binding]; other site 577650005608 putative active site [active] 577650005609 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 577650005610 PAS fold; Region: PAS; pfam00989 577650005611 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 577650005612 putative active site [active] 577650005613 heme pocket [chemical binding]; other site 577650005614 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 577650005615 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 577650005616 putative active site [active] 577650005617 heme pocket [chemical binding]; other site 577650005618 PAS domain; Region: PAS; smart00091 577650005619 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 577650005620 putative active site [active] 577650005621 heme pocket [chemical binding]; other site 577650005622 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 577650005623 histidine kinase; Provisional; Region: PRK13557 577650005624 putative active site [active] 577650005625 heme pocket [chemical binding]; other site 577650005626 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 577650005627 dimer interface [polypeptide binding]; other site 577650005628 phosphorylation site [posttranslational modification] 577650005629 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 577650005630 ATP binding site [chemical binding]; other site 577650005631 Mg2+ binding site [ion binding]; other site 577650005632 G-X-G motif; other site 577650005633 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 577650005634 active site 577650005635 phosphorylation site [posttranslational modification] 577650005636 intermolecular recognition site; other site 577650005637 dimerization interface [polypeptide binding]; other site 577650005638 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 577650005639 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 577650005640 active site 577650005641 phosphorylation site [posttranslational modification] 577650005642 intermolecular recognition site; other site 577650005643 dimerization interface [polypeptide binding]; other site 577650005644 CheB methylesterase; Region: CheB_methylest; pfam01339 577650005645 CheD chemotactic sensory transduction; Region: CheD; cl00810 577650005646 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 577650005647 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 577650005648 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 577650005649 S-adenosylmethionine binding site [chemical binding]; other site 577650005650 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 577650005651 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 577650005652 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 577650005653 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 577650005654 dimer interface [polypeptide binding]; other site 577650005655 putative CheW interface [polypeptide binding]; other site 577650005656 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 577650005657 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 577650005658 putative binding surface; other site 577650005659 active site 577650005660 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 577650005661 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 577650005662 ATP binding site [chemical binding]; other site 577650005663 Mg2+ binding site [ion binding]; other site 577650005664 G-X-G motif; other site 577650005665 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 577650005666 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 577650005667 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 577650005668 active site 577650005669 phosphorylation site [posttranslational modification] 577650005670 intermolecular recognition site; other site 577650005671 dimerization interface [polypeptide binding]; other site 577650005672 STAS domain; Region: STAS_2; pfam13466 577650005673 Hemerythrin; Region: Hemerythrin; cd12107 577650005674 Fe binding site [ion binding]; other site 577650005675 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 577650005676 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 577650005677 dimer interface [polypeptide binding]; other site 577650005678 putative CheW interface [polypeptide binding]; other site 577650005679 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 577650005680 nucleoside/Zn binding site; other site 577650005681 dimer interface [polypeptide binding]; other site 577650005682 catalytic motif [active] 577650005683 universal stress protein UspE; Provisional; Region: PRK11175 577650005684 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 577650005685 Ligand Binding Site [chemical binding]; other site 577650005686 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 577650005687 Ligand Binding Site [chemical binding]; other site 577650005688 potassium/proton antiporter; Reviewed; Region: PRK05326 577650005689 TrkA-C domain; Region: TrkA_C; pfam02080 577650005690 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 577650005691 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 577650005692 active site 577650005693 phosphorylation site [posttranslational modification] 577650005694 intermolecular recognition site; other site 577650005695 dimerization interface [polypeptide binding]; other site 577650005696 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 577650005697 Walker A motif; other site 577650005698 ATP binding site [chemical binding]; other site 577650005699 Walker B motif; other site 577650005700 arginine finger; other site 577650005701 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 577650005702 nickel responsive regulator; Provisional; Region: PRK04460 577650005703 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 577650005704 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 577650005705 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 577650005706 Peptidase family M48; Region: Peptidase_M48; cl12018 577650005707 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 577650005708 binding surface 577650005709 TPR motif; other site 577650005710 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 577650005711 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 577650005712 FAD binding domain; Region: FAD_binding_4; pfam01565 577650005713 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 577650005714 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 577650005715 Cysteine-rich domain; Region: CCG; pfam02754 577650005716 putative cation:proton antiport protein; Provisional; Region: PRK10669 577650005717 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 577650005718 TrkA-N domain; Region: TrkA_N; pfam02254 577650005719 TrkA-C domain; Region: TrkA_C; pfam02080 577650005720 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 577650005721 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 577650005722 putative active site [active] 577650005723 heme pocket [chemical binding]; other site 577650005724 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 577650005725 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 577650005726 putative active site [active] 577650005727 heme pocket [chemical binding]; other site 577650005728 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 577650005729 dimer interface [polypeptide binding]; other site 577650005730 phosphorylation site [posttranslational modification] 577650005731 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 577650005732 ATP binding site [chemical binding]; other site 577650005733 Mg2+ binding site [ion binding]; other site 577650005734 G-X-G motif; other site 577650005735 Response regulator receiver domain; Region: Response_reg; pfam00072 577650005736 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 577650005737 active site 577650005738 phosphorylation site [posttranslational modification] 577650005739 intermolecular recognition site; other site 577650005740 dimerization interface [polypeptide binding]; other site 577650005741 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 577650005742 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 577650005743 dimerization interface [polypeptide binding]; other site 577650005744 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 577650005745 dimer interface [polypeptide binding]; other site 577650005746 putative CheW interface [polypeptide binding]; other site 577650005747 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 577650005748 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 577650005749 active site 577650005750 phosphorylation site [posttranslational modification] 577650005751 intermolecular recognition site; other site 577650005752 dimerization interface [polypeptide binding]; other site 577650005753 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 577650005754 Walker A motif; other site 577650005755 ATP binding site [chemical binding]; other site 577650005756 Walker B motif; other site 577650005757 Coenzyme A transferase; Region: CoA_trans; cl17247 577650005758 Coenzyme A transferase; Region: CoA_trans; smart00882 577650005759 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 577650005760 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 577650005761 active site 577650005762 putative acyltransferase; Provisional; Region: PRK05790 577650005763 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 577650005764 dimer interface [polypeptide binding]; other site 577650005765 active site 577650005766 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 577650005767 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 577650005768 dimer interface [polypeptide binding]; other site 577650005769 putative CheW interface [polypeptide binding]; other site 577650005770 EAL-domain associated signalling protein domain; Region: YkuI_C; pfam10388 577650005771 Cache domain; Region: Cache_1; pfam02743 577650005772 PAS domain S-box; Region: sensory_box; TIGR00229 577650005773 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 577650005774 putative active site [active] 577650005775 heme pocket [chemical binding]; other site 577650005776 PAS domain S-box; Region: sensory_box; TIGR00229 577650005777 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 577650005778 putative active site [active] 577650005779 heme pocket [chemical binding]; other site 577650005780 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 577650005781 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 577650005782 metal binding site [ion binding]; metal-binding site 577650005783 active site 577650005784 I-site; other site 577650005785 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 577650005786 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 577650005787 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 577650005788 active site 577650005789 dimer interface [polypeptide binding]; other site 577650005790 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 577650005791 Parvovirus coat protein VP1; Region: Parvo_coat_N; pfam08398 577650005792 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 577650005793 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 577650005794 active site 577650005795 phosphorylation site [posttranslational modification] 577650005796 intermolecular recognition site; other site 577650005797 dimerization interface [polypeptide binding]; other site 577650005798 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 577650005799 Walker A motif; other site 577650005800 ATP binding site [chemical binding]; other site 577650005801 Walker B motif; other site 577650005802 arginine finger; other site 577650005803 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 577650005804 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 577650005805 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 577650005806 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 577650005807 GAF domain; Region: GAF_3; pfam13492 577650005808 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 577650005809 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 577650005810 putative active site [active] 577650005811 heme pocket [chemical binding]; other site 577650005812 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 577650005813 dimer interface [polypeptide binding]; other site 577650005814 phosphorylation site [posttranslational modification] 577650005815 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 577650005816 ATP binding site [chemical binding]; other site 577650005817 Mg2+ binding site [ion binding]; other site 577650005818 G-X-G motif; other site 577650005819 FecR protein; Region: FecR; pfam04773 577650005820 Uncharacterized Fe-S protein PflX, homolog of pyruvate formate lyase activating proteins [General function prediction only]; Region: PflX; COG1313 577650005821 PAS domain S-box; Region: sensory_box; TIGR00229 577650005822 PAS domain; Region: PAS_8; pfam13188 577650005823 GAF domain; Region: GAF_2; pfam13185 577650005824 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 577650005825 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 577650005826 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 577650005827 putative active site [active] 577650005828 heme pocket [chemical binding]; other site 577650005829 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 577650005830 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 577650005831 dimer interface [polypeptide binding]; other site 577650005832 phosphorylation site [posttranslational modification] 577650005833 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 577650005834 ATP binding site [chemical binding]; other site 577650005835 Mg2+ binding site [ion binding]; other site 577650005836 G-X-G motif; other site 577650005837 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 577650005838 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 577650005839 active site 577650005840 phosphorylation site [posttranslational modification] 577650005841 intermolecular recognition site; other site 577650005842 dimerization interface [polypeptide binding]; other site 577650005843 PAS fold; Region: PAS_4; pfam08448 577650005844 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 577650005845 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 577650005846 DNA binding residues [nucleotide binding] 577650005847 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 577650005848 chromosome condensation membrane protein; Provisional; Region: PRK14196 577650005849 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 577650005850 Hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). These enzymes belong to the peptidase family M52. Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing...; Region: H2MP; cl00477 577650005851 nickel binding site [ion binding]; other site 577650005852 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 577650005853 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 577650005854 DNA binding residues [nucleotide binding] 577650005855 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 577650005856 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 577650005857 Cysteine-rich domain; Region: CCG; pfam02754 577650005858 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 577650005859 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 577650005860 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 577650005861 4Fe-4S binding domain; Region: Fer4; pfam00037 577650005862 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 577650005863 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 577650005864 Coenzyme F420-reducing hydrogenase, gamma subunit [Energy production and conversion]; Region: FrhG; COG1941 577650005865 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 577650005866 Coenzyme F420-reducing hydrogenase, alpha subunit [Energy production and conversion]; Region: FrhA; COG3259 577650005867 Acylphosphatase; Region: Acylphosphatase; pfam00708 577650005868 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 577650005869 HypF finger; Region: zf-HYPF; pfam07503 577650005870 HypF finger; Region: zf-HYPF; pfam07503 577650005871 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 577650005872 HupF/HypC family; Region: HupF_HypC; pfam01455 577650005873 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 577650005874 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 577650005875 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 577650005876 dimerization interface [polypeptide binding]; other site 577650005877 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 577650005878 ATP binding site [chemical binding]; other site 577650005879 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 577650005880 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 577650005881 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 577650005882 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 577650005883 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 577650005884 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 577650005885 dimer interface [polypeptide binding]; other site 577650005886 phosphorylation site [posttranslational modification] 577650005887 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 577650005888 ATP binding site [chemical binding]; other site 577650005889 Mg2+ binding site [ion binding]; other site 577650005890 G-X-G motif; other site 577650005891 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 577650005892 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 577650005893 active site 577650005894 phosphorylation site [posttranslational modification] 577650005895 intermolecular recognition site; other site 577650005896 dimerization interface [polypeptide binding]; other site 577650005897 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 577650005898 Walker A motif; other site 577650005899 ATP binding site [chemical binding]; other site 577650005900 Walker B motif; other site 577650005901 arginine finger; other site 577650005902 Myosin N-terminal SH3-like domain; Region: Myosin_N; pfam02736 577650005903 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 577650005904 Predicted metal-binding protein (DUF2284); Region: DUF2284; pfam10050 577650005905 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 577650005906 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 577650005907 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 577650005908 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 577650005909 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 577650005910 NMT1/THI5 like; Region: NMT1; pfam09084 577650005911 PAS domain S-box; Region: sensory_box; TIGR00229 577650005912 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 577650005913 putative active site [active] 577650005914 heme pocket [chemical binding]; other site 577650005915 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 577650005916 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 577650005917 metal binding site [ion binding]; metal-binding site 577650005918 active site 577650005919 I-site; other site 577650005920 Hemerythrin; Region: Hemerythrin; cd12107 577650005921 Fe binding site [ion binding]; other site 577650005922 Predicted flavoprotein [General function prediction only]; Region: COG0431 577650005923 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 577650005924 4Fe-4S binding domain; Region: Fer4; pfam00037 577650005925 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 577650005926 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 577650005927 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 577650005928 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 577650005929 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 577650005930 dimer interface [polypeptide binding]; other site 577650005931 PYR/PP interface [polypeptide binding]; other site 577650005932 TPP binding site [chemical binding]; other site 577650005933 substrate binding site [chemical binding]; other site 577650005934 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 577650005935 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 577650005936 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 577650005937 TPP-binding site [chemical binding]; other site 577650005938 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 577650005939 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 577650005940 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 577650005941 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 577650005942 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 577650005943 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14463 577650005944 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 577650005945 FeS/SAM binding site; other site 577650005946 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 577650005947 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 577650005948 FeS/SAM binding site; other site 577650005949 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 577650005950 homodimer interface [polypeptide binding]; other site 577650005951 substrate-cofactor binding pocket; other site 577650005952 pyridoxal 5'-phosphate binding site [chemical binding]; other site 577650005953 catalytic residue [active] 577650005954 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 577650005955 aspartate kinase; Reviewed; Region: PRK06635 577650005956 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 577650005957 putative nucleotide binding site [chemical binding]; other site 577650005958 putative catalytic residues [active] 577650005959 putative Mg ion binding site [ion binding]; other site 577650005960 putative aspartate binding site [chemical binding]; other site 577650005961 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 577650005962 putative allosteric regulatory site; other site 577650005963 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 577650005964 putative allosteric regulatory residue; other site 577650005965 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 577650005966 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 577650005967 active site 577650005968 catalytic residues [active] 577650005969 metal binding site [ion binding]; metal-binding site 577650005970 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 577650005971 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 577650005972 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 577650005973 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 577650005974 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 577650005975 DHH family; Region: DHH; pfam01368 577650005976 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 577650005977 Adenylsuccinate lyase (ASL)_subgroup 2; Region: Adenylsuccinate_lyase_2; cd03302 577650005978 tetramer interface [polypeptide binding]; other site 577650005979 active site 577650005980 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 577650005981 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 577650005982 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 577650005983 FeS/SAM binding site; other site 577650005984 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 577650005985 active site 577650005986 hypothetical protein; Provisional; Region: PRK06361 577650005987 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 577650005988 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 577650005989 FeS/SAM binding site; other site 577650005990 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 577650005991 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 577650005992 metal binding site [ion binding]; metal-binding site 577650005993 active site 577650005994 I-site; other site 577650005995 Hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). These enzymes belong to the peptidase family M52. Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing...; Region: H2MP; cd00518 577650005996 nickel binding site [ion binding]; other site 577650005997 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 577650005998 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 577650005999 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 577650006000 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 577650006001 RNA binding surface [nucleotide binding]; other site 577650006002 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 577650006003 ATP binding site [chemical binding]; other site 577650006004 active site 577650006005 substrate binding site [chemical binding]; other site 577650006006 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 577650006007 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 577650006008 putative dimer interface [polypeptide binding]; other site 577650006009 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 577650006010 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 577650006011 putative dimer interface [polypeptide binding]; other site 577650006012 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 577650006013 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 577650006014 UbiA prenyltransferase family; Region: UbiA; pfam01040 577650006015 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 577650006016 Flavoprotein; Region: Flavoprotein; pfam02441 577650006017 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 577650006018 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 577650006019 S-adenosylmethionine binding site [chemical binding]; other site 577650006020 Menaquinone biosynthesis; Region: VitK2_biosynth; pfam02621 577650006021 chlorohydrolase; Provisional; Region: PRK08418 577650006022 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 577650006023 active site 577650006024 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 577650006025 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 577650006026 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 577650006027 FeS/SAM binding site; other site 577650006028 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 577650006029 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 577650006030 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 577650006031 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 577650006032 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 577650006033 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 577650006034 DNA binding residues [nucleotide binding] 577650006035 4-alpha-glucanotransferase; Provisional; Region: PRK14508 577650006036 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 577650006037 potential frameshift: common BLAST hit: gi|39996033|ref|NP_951984.1| sulfur transferase, selenocysteine-containing 577650006038 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 577650006039 active site residue [active] 577650006040 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 577650006041 active site residue [active] 577650006042 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 577650006043 active site residue [active] 577650006044 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 577650006045 putative binding surface; other site 577650006046 active site 577650006047 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 577650006048 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 577650006049 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 577650006050 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 577650006051 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 577650006052 AIR carboxylase; Region: AIRC; pfam00731 577650006053 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 577650006054 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 577650006055 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 577650006056 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 577650006057 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 577650006058 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 577650006059 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 577650006060 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 577650006061 inhibitor-cofactor binding pocket; inhibition site 577650006062 pyridoxal 5'-phosphate binding site [chemical binding]; other site 577650006063 catalytic residue [active] 577650006064 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 577650006065 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 577650006066 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 577650006067 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 577650006068 DNA binding residues [nucleotide binding] 577650006069 GTP-binding protein LepA; Provisional; Region: PRK05433 577650006070 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 577650006071 G1 box; other site 577650006072 putative GEF interaction site [polypeptide binding]; other site 577650006073 GTP/Mg2+ binding site [chemical binding]; other site 577650006074 Switch I region; other site 577650006075 G2 box; other site 577650006076 G3 box; other site 577650006077 Switch II region; other site 577650006078 G4 box; other site 577650006079 G5 box; other site 577650006080 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 577650006081 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 577650006082 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 577650006083 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 577650006084 G1 box; other site 577650006085 GTP/Mg2+ binding site [chemical binding]; other site 577650006086 Switch I region; other site 577650006087 G2 box; other site 577650006088 G3 box; other site 577650006089 Switch II region; other site 577650006090 G4 box; other site 577650006091 G5 box; other site 577650006092 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 577650006093 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 577650006094 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 577650006095 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 577650006096 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 577650006097 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 577650006098 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 577650006099 putative binding surface; other site 577650006100 active site 577650006101 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 577650006102 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 577650006103 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 577650006104 ATP binding site [chemical binding]; other site 577650006105 Mg2+ binding site [ion binding]; other site 577650006106 G-X-G motif; other site 577650006107 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 577650006108 CheW-like domain; Region: CheW; pfam01584 577650006109 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 577650006110 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 577650006111 active site 577650006112 phosphorylation site [posttranslational modification] 577650006113 intermolecular recognition site; other site 577650006114 dimerization interface [polypeptide binding]; other site 577650006115 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 577650006116 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 577650006117 dimerization interface [polypeptide binding]; other site 577650006118 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 577650006119 dimer interface [polypeptide binding]; other site 577650006120 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 577650006121 putative CheW interface [polypeptide binding]; other site 577650006122 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 577650006123 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 577650006124 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 577650006125 active site 577650006126 phosphorylation site [posttranslational modification] 577650006127 intermolecular recognition site; other site 577650006128 dimerization interface [polypeptide binding]; other site 577650006129 CheB methylesterase; Region: CheB_methylest; pfam01339 577650006130 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 577650006131 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 577650006132 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 577650006133 Transposase domain (DUF772); Region: DUF772; pfam05598 577650006134 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 577650006135 DDE superfamily endonuclease; Region: DDE_4; cl17710 577650006136 Response regulator receiver domain; Region: Response_reg; pfam00072 577650006137 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 577650006138 active site 577650006139 phosphorylation site [posttranslational modification] 577650006140 intermolecular recognition site; other site 577650006141 dimerization interface [polypeptide binding]; other site 577650006142 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 577650006143 homodimer interface [polypeptide binding]; other site 577650006144 metal binding site [ion binding]; metal-binding site 577650006145 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 577650006146 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 577650006147 Predicted membrane protein (DUF2232); Region: DUF2232; pfam09991 577650006148 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 577650006149 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 577650006150 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 577650006151 replicative DNA helicase; Region: DnaB; TIGR00665 577650006152 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 577650006153 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 577650006154 Walker A motif; other site 577650006155 ATP binding site [chemical binding]; other site 577650006156 Walker B motif; other site 577650006157 DNA binding loops [nucleotide binding] 577650006158 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 577650006159 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 577650006160 HIGH motif; other site 577650006161 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 577650006162 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 577650006163 active site 577650006164 KMSKS motif; other site 577650006165 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 577650006166 tRNA binding surface [nucleotide binding]; other site 577650006167 Lipopolysaccharide-assembly; Region: LptE; pfam04390 577650006168 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 577650006169 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 577650006170 FMN binding site [chemical binding]; other site 577650006171 active site 577650006172 catalytic residues [active] 577650006173 substrate binding site [chemical binding]; other site 577650006174 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 577650006175 Sel1-like repeats; Region: SEL1; smart00671 577650006176 Sel1-like repeats; Region: SEL1; smart00671 577650006177 SERine Proteinase INhibitors (serpins) exhibit conformational polymorphism shifting from native to cleaved, latent, delta, or polymorphic forms. Many serpins, such as antitrypsin and antichymotrypsin, function as serine protease inhibitors which regulate...; Region: SERPIN; cl00137 577650006178 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 577650006179 metal ion-dependent adhesion site (MIDAS); other site 577650006180 MoxR-like ATPases [General function prediction only]; Region: COG0714 577650006181 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 577650006182 Walker A motif; other site 577650006183 ATP binding site [chemical binding]; other site 577650006184 Walker B motif; other site 577650006185 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 577650006186 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 577650006187 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 577650006188 active site 577650006189 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 577650006190 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 577650006191 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 577650006192 active site 577650006193 phosphorylation site [posttranslational modification] 577650006194 intermolecular recognition site; other site 577650006195 dimerization interface [polypeptide binding]; other site 577650006196 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 577650006197 Walker A motif; other site 577650006198 ATP binding site [chemical binding]; other site 577650006199 Walker B motif; other site 577650006200 arginine finger; other site 577650006201 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 577650006202 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 577650006203 Methyltransferase domain; Region: Methyltransf_31; pfam13847 577650006204 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 577650006205 S-adenosylmethionine binding site [chemical binding]; other site 577650006206 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 577650006207 dimerization interface [polypeptide binding]; other site 577650006208 substrate binding site [chemical binding]; other site 577650006209 active site 577650006210 calcium binding site [ion binding]; other site 577650006211 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 577650006212 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 577650006213 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 577650006214 homodimer interface [polypeptide binding]; other site 577650006215 NADP binding site [chemical binding]; other site 577650006216 substrate binding site [chemical binding]; other site 577650006217 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK07701 577650006218 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 577650006219 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 577650006220 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 577650006221 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 577650006222 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 577650006223 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 577650006224 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 577650006225 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 577650006226 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 577650006227 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 577650006228 DNA binding site [nucleotide binding] 577650006229 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 577650006230 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 577650006231 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 577650006232 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 577650006233 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 577650006234 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 577650006235 Zn2+ binding site [ion binding]; other site 577650006236 Mg2+ binding site [ion binding]; other site 577650006237 FeoC like transcriptional regulator; Region: FeoC; pfam09012 577650006238 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 577650006239 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 577650006240 G1 box; other site 577650006241 GTP/Mg2+ binding site [chemical binding]; other site 577650006242 Switch I region; other site 577650006243 G2 box; other site 577650006244 G3 box; other site 577650006245 Switch II region; other site 577650006246 G4 box; other site 577650006247 G5 box; other site 577650006248 Nucleoside recognition; Region: Gate; pfam07670 577650006249 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 577650006250 Nucleoside recognition; Region: Gate; pfam07670 577650006251 FeoA domain; Region: FeoA; pfam04023 577650006252 FeoA domain; Region: FeoA; pfam04023 577650006253 The MopB_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_Thiosulfate-R-like; cd02755 577650006254 thiosulfate reductase PhsA; Provisional; Region: PRK15488 577650006255 putative [Fe4-S4] binding site [ion binding]; other site 577650006256 putative molybdopterin cofactor binding site [chemical binding]; other site 577650006257 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_CT_Thiosulfate-R-like; cd02778 577650006258 putative molybdopterin cofactor binding site; other site 577650006259 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 577650006260 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 577650006261 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 577650006262 NADH dehydrogenase subunit B; Validated; Region: PRK06411 577650006263 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 577650006264 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 577650006265 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 577650006266 NADH dehydrogenase subunit D; Validated; Region: PRK06075 577650006267 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 577650006268 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 577650006269 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 577650006270 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 577650006271 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 577650006272 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 577650006273 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 577650006274 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 577650006275 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 577650006276 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 577650006277 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 577650006278 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 577650006279 NADH dehydrogenase subunit 2; Validated; Region: ND2; MTH00011 577650006280 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 577650006281 Major Facilitator Superfamily; Region: MFS_1; pfam07690 577650006282 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 577650006283 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 577650006284 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 577650006285 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 577650006286 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 577650006287 EamA-like transporter family; Region: EamA; pfam00892 577650006288 hypothetical protein; Validated; Region: PRK00029 577650006289 Uncharacterized conserved protein [Function unknown]; Region: COG0397 577650006290 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 577650006291 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 577650006292 motif II; other site 577650006293 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 577650006294 substrate binding site [chemical binding]; other site 577650006295 multimerization interface [polypeptide binding]; other site 577650006296 ATP binding site [chemical binding]; other site 577650006297 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 577650006298 thiamine phosphate binding site [chemical binding]; other site 577650006299 active site 577650006300 pyrophosphate binding site [ion binding]; other site 577650006301 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 577650006302 dimer interface [polypeptide binding]; other site 577650006303 substrate binding site [chemical binding]; other site 577650006304 ATP binding site [chemical binding]; other site 577650006305 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 577650006306 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 577650006307 Walker A/P-loop; other site 577650006308 ATP binding site [chemical binding]; other site 577650006309 Q-loop/lid; other site 577650006310 ABC transporter signature motif; other site 577650006311 Walker B; other site 577650006312 D-loop; other site 577650006313 H-loop/switch region; other site 577650006314 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 577650006315 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 577650006316 dimer interface [polypeptide binding]; other site 577650006317 conserved gate region; other site 577650006318 putative PBP binding loops; other site 577650006319 ABC-ATPase subunit interface; other site 577650006320 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 577650006321 NMT1/THI5 like; Region: NMT1; pfam09084 577650006322 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 577650006323 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 577650006324 active site 577650006325 phosphorylation site [posttranslational modification] 577650006326 intermolecular recognition site; other site 577650006327 dimerization interface [polypeptide binding]; other site 577650006328 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 577650006329 Walker A motif; other site 577650006330 ATP binding site [chemical binding]; other site 577650006331 Walker B motif; other site 577650006332 arginine finger; other site 577650006333 Bacterial SH3 domain; Region: SH3_4; pfam06347 577650006334 Bacterial SH3 domain homologues; Region: SH3b; smart00287 577650006335 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 577650006336 Trehalose phosphorylase (TP) reversibly catalyzes trehalose synthesis and degradation from alpha-glucose-1-phosphate (alpha-Glc-1-P) and glucose. The catalyzing activity includes the phosphorolysis of trehalose, which produce alpha-Glc-1-P and glucose; Region: GT1_Trehalose_phosphorylase; cd03792 577650006337 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 577650006338 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 577650006339 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 577650006340 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 577650006341 active site 577650006342 homotetramer interface [polypeptide binding]; other site 577650006343 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 577650006344 dinuclear metal binding motif [ion binding]; other site 577650006345 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 577650006346 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 577650006347 Domain of unknown function DUF21; Region: DUF21; pfam01595 577650006348 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 577650006349 Transporter associated domain; Region: CorC_HlyC; smart01091 577650006350 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 577650006351 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 577650006352 acyl-CoA synthetase; Validated; Region: PRK09192 577650006353 acyl-activating enzyme (AAE) consensus motif; other site 577650006354 active site 577650006355 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 577650006356 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 577650006357 putative acyl-acceptor binding pocket; other site 577650006358 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 577650006359 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 577650006360 acyl-activating enzyme (AAE) consensus motif; other site 577650006361 putative AMP binding site [chemical binding]; other site 577650006362 putative active site [active] 577650006363 putative CoA binding site [chemical binding]; other site 577650006364 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 577650006365 dimerization interface [polypeptide binding]; other site 577650006366 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 577650006367 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 577650006368 dimer interface [polypeptide binding]; other site 577650006369 putative CheW interface [polypeptide binding]; other site 577650006370 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 577650006371 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613 577650006372 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 577650006373 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 577650006374 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 577650006375 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 577650006376 4Fe-4S binding domain; Region: Fer4; cl02805 577650006377 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 577650006378 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 577650006379 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 577650006380 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 577650006381 PEP synthetase regulatory protein; Provisional; Region: PRK05339 577650006382 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 577650006383 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 577650006384 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 577650006385 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 577650006386 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; cl06868 577650006387 FAD binding pocket [chemical binding]; other site 577650006388 conserved FAD binding motif [chemical binding]; other site 577650006389 phosphate binding motif [ion binding]; other site 577650006390 beta-alpha-beta structure motif; other site 577650006391 NAD binding pocket [chemical binding]; other site 577650006392 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 577650006393 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 577650006394 Coenzyme A transferase; Region: CoA_trans; cl17247 577650006395 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 577650006396 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 577650006397 dimer interface [polypeptide binding]; other site 577650006398 substrate binding site [chemical binding]; other site 577650006399 metal binding site [ion binding]; metal-binding site 577650006400 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 577650006401 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 577650006402 active site 577650006403 substrate binding site [chemical binding]; other site 577650006404 coenzyme B12 binding site [chemical binding]; other site 577650006405 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 577650006406 B12 binding site [chemical binding]; other site 577650006407 cobalt ligand [ion binding]; other site 577650006408 membrane ATPase/protein kinase; Provisional; Region: PRK09435 577650006409 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 577650006410 Walker A; other site 577650006411 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 577650006412 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 577650006413 Walker A motif; other site 577650006414 ATP binding site [chemical binding]; other site 577650006415 Walker B motif; other site 577650006416 arginine finger; other site 577650006417 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 577650006418 hypothetical protein; Validated; Region: PRK00153 577650006419 recombination protein RecR; Reviewed; Region: recR; PRK00076 577650006420 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 577650006421 helix-hairpin-helix signature motif; other site 577650006422 RecR protein; Region: RecR; pfam02132 577650006423 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 577650006424 putative active site [active] 577650006425 putative metal-binding site [ion binding]; other site 577650006426 tetramer interface [polypeptide binding]; other site 577650006427 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 577650006428 Transcriptional regulators [Transcription]; Region: FadR; COG2186 577650006429 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 577650006430 DNA-binding site [nucleotide binding]; DNA binding site 577650006431 FCD domain; Region: FCD; pfam07729 577650006432 Sulfatase; Region: Sulfatase; cl17466 577650006433 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 577650006434 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 577650006435 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 577650006436 thiS-thiF/thiG interaction site; other site 577650006437 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 577650006438 ThiS interaction site; other site 577650006439 putative active site [active] 577650006440 tetramer interface [polypeptide binding]; other site 577650006441 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 577650006442 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 577650006443 FeS/SAM binding site; other site 577650006444 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 577650006445 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 577650006446 thiamine biosynthesis protein ThiF; Provisional; Region: PRK08644 577650006447 ATP binding site [chemical binding]; other site 577650006448 substrate interface [chemical binding]; other site 577650006449 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 577650006450 thiamine phosphate binding site [chemical binding]; other site 577650006451 active site 577650006452 pyrophosphate binding site [ion binding]; other site 577650006453 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 577650006454 ThiC family; Region: ThiC; pfam01964 577650006455 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 577650006456 methionine sulfoxide reductase B; Provisional; Region: PRK00222 577650006457 SelR domain; Region: SelR; pfam01641 577650006458 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 577650006459 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 577650006460 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 577650006461 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 577650006462 UDP-N-acetylmuramate-alanine ligase [Cell envelope biogenesis, outer membrane]; Region: MurC; COG0773 577650006463 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 577650006464 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 577650006465 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 577650006466 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 577650006467 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 577650006468 putative active site [active] 577650006469 putative metal binding residues [ion binding]; other site 577650006470 signature motif; other site 577650006471 putative dimer interface [polypeptide binding]; other site 577650006472 putative phosphate binding site [ion binding]; other site 577650006473 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 577650006474 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 577650006475 tetramer interface [polypeptide binding]; other site 577650006476 heme binding pocket [chemical binding]; other site 577650006477 NADPH binding site [chemical binding]; other site 577650006478 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 577650006479 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 577650006480 heme binding site [chemical binding]; other site 577650006481 ferroxidase pore; other site 577650006482 ferroxidase diiron center [ion binding]; other site 577650006483 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 577650006484 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 577650006485 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 577650006486 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 577650006487 nucleotide binding region [chemical binding]; other site 577650006488 ATP-binding site [chemical binding]; other site 577650006489 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 577650006490 Coenzyme A binding pocket [chemical binding]; other site 577650006491 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 577650006492 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 577650006493 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 577650006494 active site 577650006495 HIGH motif; other site 577650006496 KMSK motif region; other site 577650006497 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 577650006498 tRNA binding surface [nucleotide binding]; other site 577650006499 anticodon binding site; other site 577650006500 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 577650006501 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 577650006502 active site 577650006503 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 577650006504 dimer interface [polypeptide binding]; other site 577650006505 substrate binding site [chemical binding]; other site 577650006506 catalytic residues [active] 577650006507 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 577650006508 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 577650006509 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 577650006510 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 577650006511 putative active site pocket [active] 577650006512 cleavage site 577650006513 outer membrane lipoprotein Blc; Provisional; Region: PRK10477 577650006514 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 577650006515 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 577650006516 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 577650006517 HlyD family secretion protein; Region: HlyD_3; pfam13437 577650006518 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 577650006519 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 577650006520 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 577650006521 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 577650006522 DXD motif; other site 577650006523 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 577650006524 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 577650006525 NAD-dependent deacetylase; Provisional; Region: PRK00481 577650006526 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 577650006527 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 577650006528 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 577650006529 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 577650006530 Actin cytoskeleton-regulatory complex protein END3; Region: End3; pfam12761 577650006531 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 577650006532 FAD binding domain; Region: FAD_binding_4; pfam01565 577650006533 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 577650006534 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 577650006535 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 577650006536 Cysteine-rich domain; Region: CCG; pfam02754 577650006537 Cysteine-rich domain; Region: CCG; pfam02754 577650006538 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 577650006539 ResB-like family; Region: ResB; pfam05140 577650006540 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 577650006541 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 577650006542 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 577650006543 heme-binding residues [chemical binding]; other site 577650006544 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 577650006545 DALR anticodon binding domain; Region: DALR_1; pfam05746 577650006546 Type I GTP cyclohydrolase folE2; Region: GCHY-1; cl00642 577650006547 Response regulator receiver domain; Region: Response_reg; pfam00072 577650006548 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 577650006549 active site 577650006550 phosphorylation site [posttranslational modification] 577650006551 intermolecular recognition site; other site 577650006552 dimerization interface [polypeptide binding]; other site 577650006553 ADP-glucose phosphorylase; Region: PLN02643 577650006554 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 577650006555 nucleotide binding site/active site [active] 577650006556 HIT family signature motif; other site 577650006557 catalytic residue [active] 577650006558 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 577650006559 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 577650006560 trimer interface [polypeptide binding]; other site 577650006561 dimer interface [polypeptide binding]; other site 577650006562 putative active site [active] 577650006563 chaperone protein DnaJ; Provisional; Region: PRK10767 577650006564 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 577650006565 HSP70 interaction site [polypeptide binding]; other site 577650006566 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 577650006567 substrate binding site [polypeptide binding]; other site 577650006568 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 577650006569 Zn binding sites [ion binding]; other site 577650006570 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 577650006571 dimer interface [polypeptide binding]; other site 577650006572 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 577650006573 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 577650006574 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 577650006575 GDP-binding site [chemical binding]; other site 577650006576 ACT binding site; other site 577650006577 IMP binding site; other site 577650006578 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 577650006579 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 577650006580 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 577650006581 hypothetical protein; Provisional; Region: PRK10410 577650006582 sec-independent translocase; Provisional; Region: tatB; PRK00404 577650006583 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 577650006584 Sec-independent protein translocase protein (TatC); Region: TatC; pfam00902 577650006585 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 577650006586 FeS/SAM binding site; other site 577650006587 Radical SAM superfamily; Region: Radical_SAM; pfam04055 577650006588 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 577650006589 nucleoside/Zn binding site; other site 577650006590 dimer interface [polypeptide binding]; other site 577650006591 catalytic motif [active] 577650006592 Membrane protease subunit, stomatin/prohibitin family [Amino acid transport and metabolism]; Region: COG4260 577650006593 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_5; cd03408 577650006594 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 577650006595 Double zinc ribbon; Region: DZR; pfam12773 577650006596 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 577650006597 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 577650006598 hypothetical protein; Provisional; Region: PRK06761 577650006599 6-phosphofructo-2-kinase; Region: 6PF2K; pfam01591 577650006600 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 577650006601 catalytic core [active] 577650006602 aminopeptidase N; Provisional; Region: pepN; PRK14015 577650006603 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 577650006604 active site 577650006605 Zn binding site [ion binding]; other site 577650006606 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 577650006607 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 577650006608 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 577650006609 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 577650006610 HlyD family secretion protein; Region: HlyD_3; pfam13437 577650006611 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 577650006612 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 577650006613 Walker A/P-loop; other site 577650006614 ATP binding site [chemical binding]; other site 577650006615 Q-loop/lid; other site 577650006616 ABC transporter signature motif; other site 577650006617 Walker B; other site 577650006618 D-loop; other site 577650006619 H-loop/switch region; other site 577650006620 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 577650006621 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 577650006622 FtsX-like permease family; Region: FtsX; pfam02687 577650006623 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 577650006624 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 577650006625 FtsX-like permease family; Region: FtsX; pfam02687 577650006626 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 577650006627 Dihaem cytochrome c; Region: DHC; pfam09626 577650006628 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 577650006629 Amidohydrolase; Region: Amidohydro_4; pfam13147 577650006630 malate dehydrogenase; Provisional; Region: PRK13529 577650006631 Malic enzyme, N-terminal domain; Region: malic; pfam00390 577650006632 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 577650006633 NAD(P) binding site [chemical binding]; other site 577650006634 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 577650006635 FIST C domain; Region: FIST_C; pfam10442 577650006636 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 577650006637 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 577650006638 active site 577650006639 NAD binding site [chemical binding]; other site 577650006640 metal binding site [ion binding]; metal-binding site 577650006641 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 577650006642 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 577650006643 dimer interface [polypeptide binding]; other site 577650006644 phosphorylation site [posttranslational modification] 577650006645 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 577650006646 ATP binding site [chemical binding]; other site 577650006647 Mg2+ binding site [ion binding]; other site 577650006648 G-X-G motif; other site 577650006649 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 577650006650 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 577650006651 active site 577650006652 phosphorylation site [posttranslational modification] 577650006653 intermolecular recognition site; other site 577650006654 dimerization interface [polypeptide binding]; other site 577650006655 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 577650006656 Walker A motif; other site 577650006657 ATP binding site [chemical binding]; other site 577650006658 Walker B motif; other site 577650006659 arginine finger; other site 577650006660 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 577650006661 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 577650006662 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 577650006663 catalytic motif [active] 577650006664 Zn binding site [ion binding]; other site 577650006665 RibD C-terminal domain; Region: RibD_C; cl17279 577650006666 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 577650006667 ATP cone domain; Region: ATP-cone; pfam03477 577650006668 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 577650006669 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 577650006670 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 577650006671 dimer interface [polypeptide binding]; other site 577650006672 active site 577650006673 acyl carrier protein; Provisional; Region: acpP; PRK00982 577650006674 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 577650006675 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 577650006676 NAD(P) binding site [chemical binding]; other site 577650006677 homotetramer interface [polypeptide binding]; other site 577650006678 homodimer interface [polypeptide binding]; other site 577650006679 active site 577650006680 4Fe-4S binding domain; Region: Fer4; pfam00037 577650006681 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 577650006682 4Fe-4S binding domain; Region: Fer4; pfam00037 577650006683 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 577650006684 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 577650006685 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 577650006686 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 577650006687 Ligand binding site [chemical binding]; other site 577650006688 Electron transfer flavoprotein domain; Region: ETF; pfam01012 577650006689 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 577650006690 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 577650006691 active site 577650006692 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 577650006693 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 577650006694 dimer interface [polypeptide binding]; other site 577650006695 active site 577650006696 CoA binding pocket [chemical binding]; other site 577650006697 putative phosphate acyltransferase; Provisional; Region: PRK05331 577650006698 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 577650006699 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 577650006700 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 577650006701 VacJ like lipoprotein; Region: VacJ; cl01073 577650006702 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 577650006703 mce related protein; Region: MCE; pfam02470 577650006704 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 577650006705 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 577650006706 Walker A/P-loop; other site 577650006707 ATP binding site [chemical binding]; other site 577650006708 Q-loop/lid; other site 577650006709 ABC transporter signature motif; other site 577650006710 Walker B; other site 577650006711 D-loop; other site 577650006712 H-loop/switch region; other site 577650006713 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 577650006714 Permease; Region: Permease; pfam02405 577650006715 PilZ domain; Region: PilZ; pfam07238 577650006716 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 577650006717 Predicted permeases [General function prediction only]; Region: COG0730 577650006718 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 577650006719 GAF domain; Region: GAF; pfam01590 577650006720 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 577650006721 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 577650006722 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 577650006723 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 577650006724 dimer interface [polypeptide binding]; other site 577650006725 phosphorylation site [posttranslational modification] 577650006726 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 577650006727 active site 577650006728 phosphorylation site [posttranslational modification] 577650006729 intermolecular recognition site; other site 577650006730 dimerization interface [polypeptide binding]; other site 577650006731 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 577650006732 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 577650006733 putative active site [active] 577650006734 heme pocket [chemical binding]; other site 577650006735 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 577650006736 dimer interface [polypeptide binding]; other site 577650006737 phosphorylation site [posttranslational modification] 577650006738 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 577650006739 ATP binding site [chemical binding]; other site 577650006740 Mg2+ binding site [ion binding]; other site 577650006741 G-X-G motif; other site 577650006742 polyphosphate kinase; Provisional; Region: PRK05443 577650006743 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 577650006744 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 577650006745 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 577650006746 putative domain interface [polypeptide binding]; other site 577650006747 putative active site [active] 577650006748 catalytic site [active] 577650006749 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 577650006750 putative domain interface [polypeptide binding]; other site 577650006751 putative active site [active] 577650006752 catalytic site [active] 577650006753 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 577650006754 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 577650006755 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 577650006756 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 577650006757 NADP binding site [chemical binding]; other site 577650006758 dimer interface [polypeptide binding]; other site 577650006759 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 577650006760 Major Facilitator Superfamily; Region: MFS_1; pfam07690 577650006761 putative substrate translocation pore; other site 577650006762 trigger factor; Region: tig; TIGR00115 577650006763 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 577650006764 Clp protease; Region: CLP_protease; pfam00574 577650006765 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 577650006766 oligomer interface [polypeptide binding]; other site 577650006767 active site residues [active] 577650006768 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 577650006769 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 577650006770 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 577650006771 Walker A motif; other site 577650006772 ATP binding site [chemical binding]; other site 577650006773 Walker B motif; other site 577650006774 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 577650006775 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 577650006776 Found in ATP-dependent protease La (LON); Region: LON; smart00464 577650006777 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 577650006778 Walker A motif; other site 577650006779 ATP binding site [chemical binding]; other site 577650006780 Walker B motif; other site 577650006781 arginine finger; other site 577650006782 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 577650006783 Flagellin N-methylase; Region: FliB; pfam03692 577650006784 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 577650006785 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 577650006786 active site 577650006787 phosphorylation site [posttranslational modification] 577650006788 intermolecular recognition site; other site 577650006789 dimerization interface [polypeptide binding]; other site 577650006790 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 577650006791 Walker A motif; other site 577650006792 ATP binding site [chemical binding]; other site 577650006793 Walker B motif; other site 577650006794 arginine finger; other site 577650006795 Predicted protein-tyrosine phosphatase [Signal transduction mechanisms]; Region: CDC14; COG2453 577650006796 active site 577650006797 catalytic residues [active] 577650006798 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 577650006799 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 577650006800 thiamine monophosphate kinase; Provisional; Region: PRK05731 577650006801 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 577650006802 ATP binding site [chemical binding]; other site 577650006803 dimerization interface [polypeptide binding]; other site 577650006804 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 577650006805 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 577650006806 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 577650006807 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 577650006808 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 577650006809 dimerization domain swap beta strand [polypeptide binding]; other site 577650006810 regulatory protein interface [polypeptide binding]; other site 577650006811 active site 577650006812 regulatory phosphorylation site [posttranslational modification]; other site 577650006813 PAS domain S-box; Region: sensory_box; TIGR00229 577650006814 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 577650006815 putative active site [active] 577650006816 heme pocket [chemical binding]; other site 577650006817 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 577650006818 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 577650006819 dimer interface [polypeptide binding]; other site 577650006820 phosphorylation site [posttranslational modification] 577650006821 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 577650006822 ATP binding site [chemical binding]; other site 577650006823 Mg2+ binding site [ion binding]; other site 577650006824 G-X-G motif; other site 577650006825 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 577650006826 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 577650006827 active site 577650006828 phosphorylation site [posttranslational modification] 577650006829 intermolecular recognition site; other site 577650006830 dimerization interface [polypeptide binding]; other site 577650006831 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 577650006832 Transposase; Region: HTH_Tnp_1; cl17663 577650006833 putative transposase OrfB; Reviewed; Region: PHA02517 577650006834 Integrase core domain; Region: rve; pfam00665 577650006835 Integrase core domain; Region: rve_3; pfam13683 577650006836 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 577650006837 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 577650006838 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 577650006839 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 577650006840 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 577650006841 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 577650006842 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 577650006843 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 577650006844 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 577650006845 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 577650006846 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 577650006847 4Fe-4S binding domain; Region: Fer4; pfam00037 577650006848 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 577650006849 NADH dehydrogenase; Region: NADHdh; cl00469 577650006850 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 577650006851 catalytic loop [active] 577650006852 iron binding site [ion binding]; other site 577650006853 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 577650006854 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 577650006855 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 577650006856 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 577650006857 SLBB domain; Region: SLBB; pfam10531 577650006858 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 577650006859 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 577650006860 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 577650006861 putative dimer interface [polypeptide binding]; other site 577650006862 [2Fe-2S] cluster binding site [ion binding]; other site 577650006863 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 577650006864 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 577650006865 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 577650006866 NADH dehydrogenase subunit B; Validated; Region: PRK06411 577650006867 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 577650006868 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 577650006869 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 577650006870 dimer interface [polypeptide binding]; other site 577650006871 ssDNA binding site [nucleotide binding]; other site 577650006872 tetramer (dimer of dimers) interface [polypeptide binding]; other site 577650006873 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 577650006874 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 577650006875 Nitrogen regulatory protein P-II; Region: P-II; smart00938 577650006876 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 577650006877 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 577650006878 putative dimer interface [polypeptide binding]; other site 577650006879 [2Fe-2S] cluster binding site [ion binding]; other site 577650006880 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 577650006881 dimer interface [polypeptide binding]; other site 577650006882 [2Fe-2S] cluster binding site [ion binding]; other site 577650006883 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 577650006884 SLBB domain; Region: SLBB; pfam10531 577650006885 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 577650006886 bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569 577650006887 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 577650006888 catalytic loop [active] 577650006889 iron binding site [ion binding]; other site 577650006890 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 577650006891 4Fe-4S binding domain; Region: Fer4; pfam00037 577650006892 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 577650006893 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 577650006894 Coenzyme F420-reducing hydrogenase, alpha subunit [Energy production and conversion]; Region: FrhA; COG3259 577650006895 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 577650006896 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 577650006897 Type II transport protein GspH; Region: GspH; pfam12019 577650006898 Calx-beta domain; Region: Calx-beta; cl02522 577650006899 Calx-beta domain; Region: Calx-beta; cl02522 577650006900 Calx-beta domain; Region: Calx-beta; cl02522 577650006901 Calx-beta domain; Region: Calx-beta; cl02522 577650006902 Protein metal binding site; Region: Cu-binding_MopE; pfam11617 577650006903 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 577650006904 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 577650006905 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 577650006906 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 577650006907 active site 577650006908 phosphorylation site [posttranslational modification] 577650006909 intermolecular recognition site; other site 577650006910 dimerization interface [polypeptide binding]; other site 577650006911 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 577650006912 Walker A motif; other site 577650006913 ATP binding site [chemical binding]; other site 577650006914 Walker B motif; other site 577650006915 arginine finger; other site 577650006916 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 577650006917 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 577650006918 HAMP domain; Region: HAMP; pfam00672 577650006919 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 577650006920 dimer interface [polypeptide binding]; other site 577650006921 phosphorylation site [posttranslational modification] 577650006922 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 577650006923 ATP binding site [chemical binding]; other site 577650006924 Mg2+ binding site [ion binding]; other site 577650006925 G-X-G motif; other site 577650006926 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 577650006927 Tetratricopeptide repeat; Region: TPR_12; pfam13424 577650006928 binding surface 577650006929 TPR motif; other site 577650006930 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 577650006931 binding surface 577650006932 TPR repeat; Region: TPR_11; pfam13414 577650006933 TPR motif; other site 577650006934 Vitamin K epoxide reductase family in bacteria; Region: VKOR_3; cd12920 577650006935 putative active site [active] 577650006936 redox center [active] 577650006937 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 577650006938 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 577650006939 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 577650006940 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 577650006941 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 577650006942 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 577650006943 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 577650006944 active site 577650006945 nucleotide binding site [chemical binding]; other site 577650006946 HIGH motif; other site 577650006947 KMSKS motif; other site 577650006948 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 577650006949 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 577650006950 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 577650006951 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 577650006952 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 577650006953 PEP-CTERM/exosortase A-associated glycosyltransferase, Daro_2409 family; Region: stp3; TIGR04063 577650006954 glycosyltransferase, TIGR04182 family; Region: glyco_TIGR04182 577650006955 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 577650006956 Ligand binding site; other site 577650006957 Putative Catalytic site; other site 577650006958 DXD motif; other site 577650006959 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 577650006960 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 577650006961 dimer interface [polypeptide binding]; other site 577650006962 active site 577650006963 metal binding site [ion binding]; metal-binding site 577650006964 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 577650006965 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 577650006966 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 577650006967 ThiS family; Region: ThiS; pfam02597 577650006968 charged pocket; other site 577650006969 hydrophobic patch; other site 577650006970 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 577650006971 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 577650006972 dimer interface [polypeptide binding]; other site 577650006973 putative functional site; other site 577650006974 putative MPT binding site; other site 577650006975 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional; Region: PRK14498 577650006976 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 577650006977 dimer interface [polypeptide binding]; other site 577650006978 putative functional site; other site 577650006979 putative MPT binding site; other site 577650006980 PBP superfamily domain; Region: PBP_like; pfam12727 577650006981 hypothetical protein; Provisional; Region: PRK08328 577650006982 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 577650006983 ATP binding site [chemical binding]; other site 577650006984 substrate interface [chemical binding]; other site 577650006985 Helix-turn-helix domain; Region: HTH_17; pfam12728 577650006986 PBP superfamily domain; Region: PBP_like; pfam12727 577650006987 PBP superfamily domain; Region: PBP_like_2; pfam12849 577650006988 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 577650006989 dimer interface [polypeptide binding]; other site 577650006990 conserved gate region; other site 577650006991 putative PBP binding loops; other site 577650006992 ABC-ATPase subunit interface; other site 577650006993 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 577650006994 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 577650006995 Walker A/P-loop; other site 577650006996 ATP binding site [chemical binding]; other site 577650006997 Q-loop/lid; other site 577650006998 ABC transporter signature motif; other site 577650006999 Walker B; other site 577650007000 D-loop; other site 577650007001 H-loop/switch region; other site 577650007002 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 577650007003 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 577650007004 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 577650007005 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 577650007006 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12573 577650007007 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 577650007008 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 577650007009 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 577650007010 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 577650007011 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 577650007012 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12671 577650007013 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 577650007014 4Fe-4S binding domain; Region: Fer4_5; pfam12801 577650007015 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 577650007016 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 577650007017 Uncharacterized conserved protein [Function unknown]; Region: COG2006 577650007018 Domain of unknown function (DUF362); Region: DUF362; pfam04015 577650007019 hypothetical protein; Provisional; Region: PRK11111 577650007020 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 577650007021 FMN binding site [chemical binding]; other site 577650007022 dimer interface [polypeptide binding]; other site 577650007023 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 577650007024 trimer interface [polypeptide binding]; other site 577650007025 putative Zn binding site [ion binding]; other site 577650007026 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 577650007027 FAD binding domain; Region: FAD_binding_4; pfam01565 577650007028 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 577650007029 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 577650007030 Zn2+ binding site [ion binding]; other site 577650007031 Mg2+ binding site [ion binding]; other site 577650007032 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 577650007033 Ligand Binding Site [chemical binding]; other site 577650007034 Universal stress protein family; Region: Usp; pfam00582 577650007035 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 577650007036 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 577650007037 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 577650007038 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 577650007039 motif II; other site 577650007040 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 577650007041 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 577650007042 CoA binding domain; Region: CoA_binding_2; pfam13380 577650007043 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 577650007044 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 577650007045 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 577650007046 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 577650007047 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 577650007048 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 577650007049 AsnC family; Region: AsnC_trans_reg; pfam01037 577650007050 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 577650007051 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 577650007052 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 577650007053 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 577650007054 Soluble P-type ATPase [General function prediction only]; Region: COG4087 577650007055 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 577650007056 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 577650007057 Nitroreductase family. Members of this family utilize FMN as a cofactor. This family is involved in the reduction of flavin or nitroaromatic compounds by using NAD(P)H as electron donor in a obligatory two-electron transfer. Nitrogenase is homodimer; Region: NADH_nitroreductase; cd02143 577650007058 putative FMN binding site [chemical binding]; other site 577650007059 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 577650007060 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 577650007061 N-acetyl-D-glucosamine binding site [chemical binding]; other site 577650007062 catalytic residue [active] 577650007063 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 577650007064 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 577650007065 active site 577650007066 nucleotide binding site [chemical binding]; other site 577650007067 HIGH motif; other site 577650007068 KMSKS motif; other site 577650007069 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 577650007070 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 577650007071 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 577650007072 putative dimer interface [polypeptide binding]; other site 577650007073 [2Fe-2S] cluster binding site [ion binding]; other site 577650007074 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 577650007075 dimer interface [polypeptide binding]; other site 577650007076 [2Fe-2S] cluster binding site [ion binding]; other site 577650007077 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 577650007078 SLBB domain; Region: SLBB; pfam10531 577650007079 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 577650007080 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 577650007081 4Fe-4S binding domain; Region: Fer4; pfam00037 577650007082 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 577650007083 catalytic loop [active] 577650007084 iron binding site [ion binding]; other site 577650007085 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 577650007086 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 577650007087 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 577650007088 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 577650007089 FAD binding pocket [chemical binding]; other site 577650007090 FAD binding motif [chemical binding]; other site 577650007091 phosphate binding motif [ion binding]; other site 577650007092 beta-alpha-beta structure motif; other site 577650007093 NAD binding pocket [chemical binding]; other site 577650007094 Iron coordination center [ion binding]; other site 577650007095 putative oxidoreductase; Provisional; Region: PRK12831 577650007096 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 577650007097 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 577650007098 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 577650007099 putative ADP-ribose binding site [chemical binding]; other site 577650007100 putative active site [active] 577650007101 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 577650007102 putative active site pocket [active] 577650007103 dimerization interface [polypeptide binding]; other site 577650007104 putative catalytic residue [active] 577650007105 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 577650007106 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 577650007107 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 577650007108 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 577650007109 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII; cd09992 577650007110 active site 577650007111 Zn binding site [ion binding]; other site 577650007112 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 577650007113 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 577650007114 Catalytic site [active] 577650007115 Predicted permeases [General function prediction only]; Region: COG0679 577650007116 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 577650007117 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 577650007118 active site 577650007119 metal binding site [ion binding]; metal-binding site 577650007120 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 577650007121 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 577650007122 Coenzyme A binding pocket [chemical binding]; other site 577650007123 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 577650007124 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 577650007125 Soluble P-type ATPase [General function prediction only]; Region: COG4087 577650007126 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 577650007127 putative homodimer interface [polypeptide binding]; other site 577650007128 putative homotetramer interface [polypeptide binding]; other site 577650007129 putative allosteric switch controlling residues; other site 577650007130 putative metal binding site [ion binding]; other site 577650007131 putative homodimer-homodimer interface [polypeptide binding]; other site 577650007132 Methyltransferase domain; Region: Methyltransf_23; pfam13489 577650007133 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 577650007134 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 577650007135 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 577650007136 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 577650007137 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 577650007138 S-adenosylmethionine binding site [chemical binding]; other site 577650007139 Protein of unknown function (DUF1295); Region: DUF1295; cl17837 577650007140 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 577650007141 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 577650007142 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 577650007143 Predicted membrane protein (DUF2177); Region: DUF2177; pfam09945 577650007144 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 577650007145 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 577650007146 catalytic residues [active] 577650007147 Ferredoxin thioredoxin reductase catalytic beta chain; Region: FeThRed_B; cl01977 577650007148 Putative cyclase; Region: Cyclase; cl00814 577650007149 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 577650007150 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 577650007151 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 577650007152 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 577650007153 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 577650007154 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 577650007155 putative catalytic residues [active] 577650007156 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 577650007157 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 577650007158 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 577650007159 FMN binding site [chemical binding]; other site 577650007160 active site 577650007161 substrate binding site [chemical binding]; other site 577650007162 catalytic residue [active] 577650007163 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 577650007164 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 577650007165 NAD binding site [chemical binding]; other site 577650007166 putative substrate binding site 2 [chemical binding]; other site 577650007167 putative substrate binding site 1 [chemical binding]; other site 577650007168 active site 577650007169 flagellin; Provisional; Region: PRK12806 577650007170 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 577650007171 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 577650007172 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 577650007173 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 577650007174 Methyltransferase domain; Region: Methyltransf_23; pfam13489 577650007175 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 577650007176 S-adenosylmethionine binding site [chemical binding]; other site 577650007177 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 577650007178 binding surface 577650007179 Tetratricopeptide repeat; Region: TPR_16; pfam13432 577650007180 TPR motif; other site 577650007181 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 577650007182 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 577650007183 binding surface 577650007184 TPR motif; other site 577650007185 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 577650007186 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 577650007187 binding surface 577650007188 TPR motif; other site 577650007189 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 577650007190 binding surface 577650007191 TPR motif; other site 577650007192 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 577650007193 flagellin; Reviewed; Region: PRK08869 577650007194 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 577650007195 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 577650007196 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 577650007197 FlaG protein; Region: FlaG; pfam03646 577650007198 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 577650007199 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 577650007200 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 577650007201 Flagellar protein FliS; Region: FliS; cl00654 577650007202 PilZ domain; Region: PilZ; pfam07238 577650007203 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 577650007204 PilZ domain; Region: PilZ; pfam07238 577650007205 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 577650007206 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 577650007207 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 577650007208 Major Facilitator Superfamily; Region: MFS_1; pfam07690 577650007209 putative substrate translocation pore; other site 577650007210 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; cl17904 577650007211 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 577650007212 Transposase; Region: HTH_Tnp_1; cl17663 577650007213 putative transposase OrfB; Reviewed; Region: PHA02517 577650007214 Integrase core domain; Region: rve; pfam00665 577650007215 Integrase core domain; Region: rve_3; pfam13683 577650007216 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 577650007217 Prephenate dehydratase; Region: PDT; pfam00800 577650007218 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 577650007219 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 577650007220 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 577650007221 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 577650007222 ATP binding site [chemical binding]; other site 577650007223 putative Mg++ binding site [ion binding]; other site 577650007224 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 577650007225 nucleotide binding region [chemical binding]; other site 577650007226 ATP-binding site [chemical binding]; other site 577650007227 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 577650007228 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 577650007229 active site 577650007230 substrate binding site [chemical binding]; other site 577650007231 catalytic site [active] 577650007232 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 577650007233 Bacterial SH3 domain; Region: SH3_3; pfam08239 577650007234 Bacterial SH3 domain; Region: SH3_3; pfam08239 577650007235 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 577650007236 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 577650007237 RNA binding surface [nucleotide binding]; other site 577650007238 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 577650007239 Protein of unknown function (DUF3251); Region: DUF3251; cl08186 577650007240 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 577650007241 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 577650007242 binding surface 577650007243 TPR motif; other site 577650007244 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 577650007245 TolB amino-terminal domain; Region: TolB_N; pfam04052 577650007246 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 577650007247 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 577650007248 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 577650007249 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 577650007250 TonB C terminal; Region: TonB_2; pfam13103 577650007251 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 577650007252 TolR protein; Region: tolR; TIGR02801 577650007253 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 577650007254 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 577650007255 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 577650007256 Protein of unknown function (DUF615); Region: DUF615; pfam04751 577650007257 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 577650007258 Flavoprotein; Region: Flavoprotein; pfam02441 577650007259 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 577650007260 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 577650007261 active site 577650007262 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 577650007263 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 577650007264 catalytic residue [active] 577650007265 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 577650007266 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 577650007267 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 577650007268 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 577650007269 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 577650007270 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 577650007271 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 577650007272 enolase; Provisional; Region: eno; PRK00077 577650007273 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 577650007274 dimer interface [polypeptide binding]; other site 577650007275 metal binding site [ion binding]; metal-binding site 577650007276 substrate binding pocket [chemical binding]; other site 577650007277 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 577650007278 IHF dimer interface [polypeptide binding]; other site 577650007279 IHF - DNA interface [nucleotide binding]; other site 577650007280 ParB-like nuclease domain; Region: ParBc; pfam02195 577650007281 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 577650007282 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 577650007283 DNA binding residues [nucleotide binding] 577650007284 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 577650007285 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 577650007286 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 577650007287 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 577650007288 4Fe-4S binding domain; Region: Fer4; cl02805 577650007289 PAS domain; Region: PAS; smart00091 577650007290 PAS domain; Region: PAS_9; pfam13426 577650007291 putative active site [active] 577650007292 heme pocket [chemical binding]; other site 577650007293 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 577650007294 PAS domain; Region: PAS_9; pfam13426 577650007295 putative active site [active] 577650007296 heme pocket [chemical binding]; other site 577650007297 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 577650007298 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 577650007299 putative active site [active] 577650007300 heme pocket [chemical binding]; other site 577650007301 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 577650007302 putative active site [active] 577650007303 heme pocket [chemical binding]; other site 577650007304 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 577650007305 Walker A motif; other site 577650007306 ATP binding site [chemical binding]; other site 577650007307 Walker B motif; other site 577650007308 arginine finger; other site 577650007309 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 577650007310 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 577650007311 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 577650007312 DNA binding residues [nucleotide binding] 577650007313 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 577650007314 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 577650007315 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 577650007316 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 577650007317 Walker A motif; other site 577650007318 ATP binding site [chemical binding]; other site 577650007319 Walker B motif; other site 577650007320 arginine finger; other site 577650007321 Peptidase family M41; Region: Peptidase_M41; pfam01434 577650007322 Staphylococcal nuclease homologues; Region: SNc; smart00318 577650007323 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 577650007324 Catalytic site; other site 577650007325 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 577650007326 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 577650007327 ligand binding site [chemical binding]; other site 577650007328 flexible hinge region; other site 577650007329 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 577650007330 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 577650007331 Walker A motif; other site 577650007332 ATP binding site [chemical binding]; other site 577650007333 Walker B motif; other site 577650007334 arginine finger; other site 577650007335 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 577650007336 Chemotaxis phosphatase CheX; Region: CheX; cl15816 577650007337 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 577650007338 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 577650007339 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 577650007340 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 577650007341 Response regulator receiver domain; Region: Response_reg; pfam00072 577650007342 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 577650007343 active site 577650007344 phosphorylation site [posttranslational modification] 577650007345 intermolecular recognition site; other site 577650007346 dimerization interface [polypeptide binding]; other site 577650007347 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 577650007348 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 577650007349 binding surface 577650007350 TPR motif; other site 577650007351 Flagellar basal body protein [Cell motility and secretion]; Region: FlgB; COG1815 577650007352 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 577650007353 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 577650007354 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 577650007355 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 577650007356 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 577650007357 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 577650007358 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 577650007359 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 577650007360 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 577650007361 FliG C-terminal domain; Region: FliG_C; pfam01706 577650007362 Flagellar assembly protein FliH; Region: FliH; pfam02108 577650007363 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 577650007364 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 577650007365 Walker A motif/ATP binding site; other site 577650007366 Walker B motif; other site 577650007367 Uncharacterized conserved protein [Function unknown]; Region: COG3334 577650007368 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 577650007369 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 577650007370 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 577650007371 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 577650007372 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 577650007373 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 577650007374 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 577650007375 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 577650007376 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 577650007377 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 577650007378 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 577650007379 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 577650007380 ligand binding site [chemical binding]; other site 577650007381 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 577650007382 Flagellar motor switch protein [Cell motility and secretion]; Region: FliM; COG1868 577650007383 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 577650007384 flagellar motor switch protein FliN; Region: fliN; TIGR02480 577650007385 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 577650007386 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 577650007387 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 577650007388 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 577650007389 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 577650007390 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 577650007391 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 577650007392 FHIPEP family; Region: FHIPEP; pfam00771 577650007393 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 577650007394 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 577650007395 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 577650007396 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 577650007397 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 577650007398 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 577650007399 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 577650007400 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 577650007401 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 577650007402 DNA binding residues [nucleotide binding] 577650007403 flagellar hook-basal body protein; Region: FlgEFG_subfam; TIGR03506 577650007404 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 577650007405 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 577650007406 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 577650007407 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 577650007408 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 577650007409 SAF-like; Region: SAF_2; pfam13144 577650007410 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 577650007411 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 577650007412 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 577650007413 Flagellar L-ring protein; Region: FlgH; pfam02107 577650007414 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 577650007415 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 577650007416 Rod binding protein; Region: Rod-binding; cl01626 577650007417 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 577650007418 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 577650007419 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 577650007420 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK07701 577650007421 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 577650007422 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 577650007423 Global regulator protein family; Region: CsrA; pfam02599 577650007424 flagellar assembly protein FliW; Provisional; Region: PRK13285 577650007425 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 577650007426 ligand-binding site [chemical binding]; other site 577650007427 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 577650007428 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 577650007429 HlyD family secretion protein; Region: HlyD_3; pfam13437 577650007430 Uncharacterized conserved protein [Function unknown]; Region: COG0432 577650007431 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 577650007432 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 577650007433 active site 577650007434 phosphorylation site [posttranslational modification] 577650007435 intermolecular recognition site; other site 577650007436 dimerization interface [polypeptide binding]; other site 577650007437 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 577650007438 Zn2+ binding site [ion binding]; other site 577650007439 Mg2+ binding site [ion binding]; other site 577650007440 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 577650007441 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 577650007442 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 577650007443 dimer interface [polypeptide binding]; other site 577650007444 phosphorylation site [posttranslational modification] 577650007445 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 577650007446 ATP binding site [chemical binding]; other site 577650007447 Mg2+ binding site [ion binding]; other site 577650007448 G-X-G motif; other site 577650007449 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 577650007450 Response regulator receiver domain; Region: Response_reg; pfam00072 577650007451 active site 577650007452 phosphorylation site [posttranslational modification] 577650007453 intermolecular recognition site; other site 577650007454 dimerization interface [polypeptide binding]; other site 577650007455 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 577650007456 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 577650007457 catalytic triad [active] 577650007458 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 577650007459 putative acyl-acceptor binding pocket; other site 577650007460 excinuclease ABC subunit B; Provisional; Region: PRK05298 577650007461 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 577650007462 ATP binding site [chemical binding]; other site 577650007463 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 577650007464 nucleotide binding region [chemical binding]; other site 577650007465 ATP-binding site [chemical binding]; other site 577650007466 Ultra-violet resistance protein B; Region: UvrB; pfam12344 577650007467 UvrB/uvrC motif; Region: UVR; pfam02151 577650007468 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 577650007469 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 577650007470 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 577650007471 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 577650007472 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 577650007473 Coenzyme A binding pocket [chemical binding]; other site 577650007474 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 577650007475 CoA binding domain; Region: CoA_binding_2; pfam13380 577650007476 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 577650007477 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 577650007478 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 577650007479 FOG: CBS domain [General function prediction only]; Region: COG0517 577650007480 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 577650007481 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 577650007482 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 577650007483 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII; cd09992 577650007484 active site 577650007485 Zn binding site [ion binding]; other site 577650007486 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 577650007487 AAA domain; Region: AAA_32; pfam13654 577650007488 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 577650007489 Ub domain fused to Mut7-C; Region: Ub-Mut7C; pfam14451 577650007490 Protein of unknown function DUF82; Region: DUF82; pfam01927 577650007491 Uncharacterized conserved protein [Function unknown]; Region: COG1656 577650007492 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 577650007493 Ligand Binding Site [chemical binding]; other site 577650007494 Sensory domain found in PocR; Region: PocR; pfam10114 577650007495 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 577650007496 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 577650007497 putative active site [active] 577650007498 heme pocket [chemical binding]; other site 577650007499 PAS domain; Region: PAS_8; pfam13188 577650007500 PAS domain S-box; Region: sensory_box; TIGR00229 577650007501 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 577650007502 putative active site [active] 577650007503 heme pocket [chemical binding]; other site 577650007504 PAS domain S-box; Region: sensory_box; TIGR00229 577650007505 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 577650007506 putative active site [active] 577650007507 heme pocket [chemical binding]; other site 577650007508 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 577650007509 PAS fold; Region: PAS_3; pfam08447 577650007510 putative active site [active] 577650007511 heme pocket [chemical binding]; other site 577650007512 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 577650007513 PAS fold; Region: PAS_3; pfam08447 577650007514 putative active site [active] 577650007515 heme pocket [chemical binding]; other site 577650007516 PAS domain; Region: PAS_8; pfam13188 577650007517 PAS domain; Region: PAS_9; pfam13426 577650007518 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 577650007519 PAS domain; Region: PAS_9; pfam13426 577650007520 putative active site [active] 577650007521 heme pocket [chemical binding]; other site 577650007522 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 577650007523 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 577650007524 dimer interface [polypeptide binding]; other site 577650007525 phosphorylation site [posttranslational modification] 577650007526 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 577650007527 ATP binding site [chemical binding]; other site 577650007528 Mg2+ binding site [ion binding]; other site 577650007529 G-X-G motif; other site 577650007530 Response regulator receiver domain; Region: Response_reg; pfam00072 577650007531 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 577650007532 active site 577650007533 phosphorylation site [posttranslational modification] 577650007534 intermolecular recognition site; other site 577650007535 dimerization interface [polypeptide binding]; other site 577650007536 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 577650007537 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 577650007538 dimerization interface [polypeptide binding]; other site 577650007539 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 577650007540 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 577650007541 dimer interface [polypeptide binding]; other site 577650007542 putative CheW interface [polypeptide binding]; other site 577650007543 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 577650007544 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 577650007545 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 577650007546 putative binding surface; other site 577650007547 active site 577650007548 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 577650007549 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 577650007550 ATP binding site [chemical binding]; other site 577650007551 Mg2+ binding site [ion binding]; other site 577650007552 G-X-G motif; other site 577650007553 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 577650007554 CheW-like domain; Region: CheW; pfam01584 577650007555 Response regulator receiver domain; Region: Response_reg; pfam00072 577650007556 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 577650007557 active site 577650007558 phosphorylation site [posttranslational modification] 577650007559 intermolecular recognition site; other site 577650007560 dimerization interface [polypeptide binding]; other site 577650007561 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 577650007562 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 577650007563 active site 577650007564 phosphorylation site [posttranslational modification] 577650007565 intermolecular recognition site; other site 577650007566 dimerization interface [polypeptide binding]; other site 577650007567 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 577650007568 Walker A motif; other site 577650007569 ATP binding site [chemical binding]; other site 577650007570 Walker B motif; other site 577650007571 arginine finger; other site 577650007572 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 577650007573 Memo (mediator of ErbB2-driven cell motility) is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility; Region: MEMO_like; cd07361 577650007574 putative ligand binding pocket/active site [active] 577650007575 putative metal binding site [ion binding]; other site 577650007576 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 577650007577 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 577650007578 active site 577650007579 HIGH motif; other site 577650007580 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 577650007581 KMSKS motif; other site 577650007582 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 577650007583 tRNA binding surface [nucleotide binding]; other site 577650007584 anticodon binding site; other site 577650007585 muropeptide transporter; Validated; Region: ampG; cl17669 577650007586 muropeptide transporter; Reviewed; Region: ampG; PRK11902 577650007587 TIGR03790 family protein; Region: TIGR03790 577650007588 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 577650007589 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 577650007590 minor groove reading motif; other site 577650007591 helix-hairpin-helix signature motif; other site 577650007592 substrate binding pocket [chemical binding]; other site 577650007593 active site 577650007594 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 577650007595 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 577650007596 active site 577650007597 8-oxo-dGMP binding site [chemical binding]; other site 577650007598 nudix motif; other site 577650007599 metal binding site [ion binding]; metal-binding site 577650007600 PAS fold; Region: PAS_4; pfam08448 577650007601 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 577650007602 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 577650007603 Walker A motif; other site 577650007604 ATP binding site [chemical binding]; other site 577650007605 Walker B motif; other site 577650007606 arginine finger; other site 577650007607 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 577650007608 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 577650007609 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 577650007610 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 577650007611 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 577650007612 catalytic residue [active] 577650007613 SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain; Region: SET; smart00317 577650007614 Cysteine-rich motif following a subset of SET domains; Region: PostSET; smart00508 577650007615 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 577650007616 Uncharacterized conserved protein [Function unknown]; Region: COG2013 577650007617 Protein of unknown function (DUF533); Region: DUF533; pfam04391 577650007618 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 577650007619 putative metal binding site [ion binding]; other site 577650007620 SprA-related family; Region: SprA-related; pfam12118 577650007621 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 577650007622 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 577650007623 active site 577650007624 metal binding site [ion binding]; metal-binding site 577650007625 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 577650007626 GAF domain; Region: GAF; pfam01590 577650007627 ANTAR domain; Region: ANTAR; pfam03861 577650007628 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 577650007629 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 577650007630 phosphate binding site [ion binding]; other site 577650007631 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]; Region: RAD55; COG0467 577650007632 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 577650007633 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 577650007634 non-specific DNA binding site [nucleotide binding]; other site 577650007635 salt bridge; other site 577650007636 sequence-specific DNA binding site [nucleotide binding]; other site 577650007637 Cupin domain; Region: Cupin_2; pfam07883 577650007638 Sulfatase; Region: Sulfatase; cl17466 577650007639 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 577650007640 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 577650007641 dimer interface [polypeptide binding]; other site 577650007642 acyl-activating enzyme (AAE) consensus motif; other site 577650007643 putative active site [active] 577650007644 AMP binding site [chemical binding]; other site 577650007645 putative CoA binding site [chemical binding]; other site 577650007646 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 577650007647 Sulfate transporter family; Region: Sulfate_transp; pfam00916 577650007648 Sulfate transporter family; Region: Sulfate_transp; pfam00916 577650007649 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 577650007650 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 577650007651 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 577650007652 Ligand Binding Site [chemical binding]; other site 577650007653 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 577650007654 Ligand Binding Site [chemical binding]; other site 577650007655 cheY-homologous receiver domain; Region: REC; smart00448 577650007656 active site 577650007657 phosphorylation site [posttranslational modification] 577650007658 intermolecular recognition site; other site 577650007659 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 577650007660 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 577650007661 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 577650007662 metal binding site [ion binding]; metal-binding site 577650007663 active site 577650007664 I-site; other site 577650007665 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 577650007666 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 577650007667 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 577650007668 ligand binding site [chemical binding]; other site 577650007669 HAMP domain; Region: HAMP; pfam00672 577650007670 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 577650007671 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 577650007672 putative active site [active] 577650007673 heme pocket [chemical binding]; other site 577650007674 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 577650007675 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 577650007676 ATP binding site [chemical binding]; other site 577650007677 Mg2+ binding site [ion binding]; other site 577650007678 G-X-G motif; other site 577650007679 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 577650007680 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 577650007681 ligand binding site [chemical binding]; other site 577650007682 CHASE4 domain; Region: CHASE4; pfam05228 577650007683 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 577650007684 dimerization interface [polypeptide binding]; other site 577650007685 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 577650007686 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 577650007687 metal binding site [ion binding]; metal-binding site 577650007688 active site 577650007689 I-site; other site 577650007690 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 577650007691 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 577650007692 substrate binding pocket [chemical binding]; other site 577650007693 membrane-bound complex binding site; other site 577650007694 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 577650007695 hinge residues; other site 577650007696 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 577650007697 heme pocket [chemical binding]; other site 577650007698 putative active site [active] 577650007699 PAS domain S-box; Region: sensory_box; TIGR00229 577650007700 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 577650007701 putative active site [active] 577650007702 heme pocket [chemical binding]; other site 577650007703 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 577650007704 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 577650007705 putative active site [active] 577650007706 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 577650007707 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 577650007708 putative active site [active] 577650007709 heme pocket [chemical binding]; other site 577650007710 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 577650007711 dimer interface [polypeptide binding]; other site 577650007712 phosphorylation site [posttranslational modification] 577650007713 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 577650007714 ATP binding site [chemical binding]; other site 577650007715 Mg2+ binding site [ion binding]; other site 577650007716 G-X-G motif; other site 577650007717 Response regulator receiver domain; Region: Response_reg; pfam00072 577650007718 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 577650007719 active site 577650007720 phosphorylation site [posttranslational modification] 577650007721 intermolecular recognition site; other site 577650007722 dimerization interface [polypeptide binding]; other site 577650007723 hypothetical protein; Provisional; Region: PRK10756 577650007724 CreA protein; Region: CreA; pfam05981 577650007725 2-isopropylmalate synthase; Validated; Region: PRK03739 577650007726 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 577650007727 active site 577650007728 catalytic residues [active] 577650007729 metal binding site [ion binding]; metal-binding site 577650007730 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 577650007731 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 577650007732 AMP binding site [chemical binding]; other site 577650007733 metal binding site [ion binding]; metal-binding site 577650007734 active site 577650007735 multifunctional aminopeptidase A; Provisional; Region: PRK00913 577650007736 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 577650007737 interface (dimer of trimers) [polypeptide binding]; other site 577650007738 Substrate-binding/catalytic site; other site 577650007739 Zn-binding sites [ion binding]; other site 577650007740 Domain of unknown function DUF21; Region: DUF21; pfam01595 577650007741 FOG: CBS domain [General function prediction only]; Region: COG0517 577650007742 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 577650007743 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 577650007744 Bacterial SH3 domain; Region: SH3_4; pfam06347 577650007745 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 577650007746 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 577650007747 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 577650007748 protein binding site [polypeptide binding]; other site 577650007749 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 577650007750 Mg2+ transporter Helicobacter pylori CorA-like subgroup; Region: HpCorA-like; cd12836 577650007751 Cl binding site [ion binding]; other site 577650007752 oligomer interface [polypeptide binding]; other site 577650007753 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 577650007754 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 577650007755 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 577650007756 dimerization interface [polypeptide binding]; other site 577650007757 putative ATP binding site [chemical binding]; other site 577650007758 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 577650007759 MPT binding site; other site 577650007760 trimer interface [polypeptide binding]; other site 577650007761 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 577650007762 elongation factor G; Reviewed; Region: PRK12740 577650007763 G1 box; other site 577650007764 putative GEF interaction site [polypeptide binding]; other site 577650007765 GTP/Mg2+ binding site [chemical binding]; other site 577650007766 Switch I region; other site 577650007767 G2 box; other site 577650007768 G3 box; other site 577650007769 Switch II region; other site 577650007770 G4 box; other site 577650007771 G5 box; other site 577650007772 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 577650007773 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 577650007774 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 577650007775 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 577650007776 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 577650007777 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 577650007778 RNA methyltransferase, RsmE family; Region: TIGR00046 577650007779 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 577650007780 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 577650007781 active site 577650007782 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 577650007783 substrate binding site [chemical binding]; other site 577650007784 catalytic residues [active] 577650007785 dimer interface [polypeptide binding]; other site 577650007786 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 577650007787 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 577650007788 putative DNA binding site [nucleotide binding]; other site 577650007789 putative Zn2+ binding site [ion binding]; other site 577650007790 AsnC family; Region: AsnC_trans_reg; pfam01037 577650007791 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 577650007792 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 577650007793 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 577650007794 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 577650007795 Competence protein; Region: Competence; pfam03772 577650007796 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 577650007797 PilZ domain; Region: PilZ; pfam07238 577650007798 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 577650007799 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 577650007800 Walker A motif; other site 577650007801 ATP binding site [chemical binding]; other site 577650007802 Walker B motif; other site 577650007803 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 577650007804 TPR motif; other site 577650007805 binding surface 577650007806 TPR repeat; Region: TPR_11; pfam13414 577650007807 Tetratricopeptide repeat; Region: TPR_12; pfam13424 577650007808 TPR repeat; Region: TPR_11; pfam13414 577650007809 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 577650007810 TPR motif; other site 577650007811 binding surface 577650007812 TPR repeat; Region: TPR_11; pfam13414 577650007813 seryl-tRNA(sec) selenium transferase; Region: selA; TIGR00474 577650007814 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 577650007815 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 577650007816 catalytic residue [active] 577650007817 Transposase domain (DUF772); Region: DUF772; pfam05598 577650007818 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 577650007819 DDE superfamily endonuclease; Region: DDE_4; cl17710 577650007820 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 577650007821 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 577650007822 putative ligand binding site [chemical binding]; other site 577650007823 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 577650007824 dimerization interface [polypeptide binding]; other site 577650007825 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 577650007826 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 577650007827 dimer interface [polypeptide binding]; other site 577650007828 putative CheW interface [polypeptide binding]; other site 577650007829 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 577650007830 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 577650007831 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 577650007832 CheW-like domain; Region: CheW; pfam01584 577650007833 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 577650007834 putative binding surface; other site 577650007835 active site 577650007836 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 577650007837 putative binding surface; other site 577650007838 active site 577650007839 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 577650007840 putative binding surface; other site 577650007841 active site 577650007842 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 577650007843 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 577650007844 ATP binding site [chemical binding]; other site 577650007845 Mg2+ binding site [ion binding]; other site 577650007846 G-X-G motif; other site 577650007847 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 577650007848 Response regulator receiver domain; Region: Response_reg; pfam00072 577650007849 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 577650007850 active site 577650007851 phosphorylation site [posttranslational modification] 577650007852 intermolecular recognition site; other site 577650007853 dimerization interface [polypeptide binding]; other site 577650007854 CheW-like domain; Region: CheW; pfam01584 577650007855 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 577650007856 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 577650007857 active site 577650007858 phosphorylation site [posttranslational modification] 577650007859 intermolecular recognition site; other site 577650007860 dimerization interface [polypeptide binding]; other site 577650007861 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 577650007862 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 577650007863 Tetratricopeptide repeat; Region: TPR_16; pfam13432 577650007864 TPR motif; other site 577650007865 Response regulator receiver domain; Region: Response_reg; pfam00072 577650007866 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 577650007867 active site 577650007868 phosphorylation site [posttranslational modification] 577650007869 intermolecular recognition site; other site 577650007870 dimerization interface [polypeptide binding]; other site 577650007871 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 577650007872 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 577650007873 active site 577650007874 Zn binding site [ion binding]; other site 577650007875 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 577650007876 substrate binding site [chemical binding]; other site 577650007877 active site 577650007878 catalytic residues [active] 577650007879 heterodimer interface [polypeptide binding]; other site 577650007880 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 577650007881 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 577650007882 pyridoxal 5'-phosphate binding site [chemical binding]; other site 577650007883 catalytic residue [active] 577650007884 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 577650007885 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 577650007886 ligand binding site [chemical binding]; other site 577650007887 flexible hinge region; other site 577650007888 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 577650007889 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 577650007890 Succinate:quinone oxidoreductase (SQR)-like Type B subfamily 2, transmembrane subunit; composed of proteins with similarity to the SQRs of Geobacter metallireducens and Corynebacterium glutamicum. SQR catalyzes the oxidation of succinate to fumarate...; Region: SQR_TypeB_2_TM; cd03498 577650007891 putative Iron-sulfur protein interface [polypeptide binding]; other site 577650007892 proximal heme binding site [chemical binding]; other site 577650007893 distal heme binding site [chemical binding]; other site 577650007894 putative dimer interface [polypeptide binding]; other site 577650007895 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 577650007896 L-aspartate oxidase; Provisional; Region: PRK06175 577650007897 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 577650007898 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 577650007899 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 577650007900 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 577650007901 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 577650007902 dimer interface [polypeptide binding]; other site 577650007903 phosphorylation site [posttranslational modification] 577650007904 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 577650007905 ATP binding site [chemical binding]; other site 577650007906 Mg2+ binding site [ion binding]; other site 577650007907 G-X-G motif; other site 577650007908 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 577650007909 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 577650007910 active site 577650007911 phosphorylation site [posttranslational modification] 577650007912 intermolecular recognition site; other site 577650007913 dimerization interface [polypeptide binding]; other site 577650007914 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 577650007915 Walker A motif; other site 577650007916 ATP binding site [chemical binding]; other site 577650007917 Walker B motif; other site 577650007918 arginine finger; other site 577650007919 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 577650007920 DctM-like transporters; Region: DctM; pfam06808 577650007921 TRAP transporter, DctM subunit; Region: dctM; TIGR00786 577650007922 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 577650007923 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 577650007924 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 577650007925 membrane-bound complex binding site; other site 577650007926 hinge residues; other site 577650007927 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 577650007928 FeS/SAM binding site; other site 577650007929 Radical SAM superfamily; Region: Radical_SAM; pfam04055 577650007930 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 577650007931 HDOD domain; Region: HDOD; pfam08668 577650007932 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 577650007933 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 577650007934 metal binding site [ion binding]; metal-binding site 577650007935 active site 577650007936 I-site; other site 577650007937 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 577650007938 pyruvate carboxylase subunit B; Validated; Region: PRK09282 577650007939 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 577650007940 active site 577650007941 catalytic residues [active] 577650007942 metal binding site [ion binding]; metal-binding site 577650007943 homodimer binding site [polypeptide binding]; other site 577650007944 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 577650007945 carboxyltransferase (CT) interaction site; other site 577650007946 biotinylation site [posttranslational modification]; other site 577650007947 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 577650007948 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 577650007949 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 577650007950 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 577650007951 CoA binding domain; Region: CoA_binding; pfam02629 577650007952 CoA-ligase; Region: Ligase_CoA; pfam00549 577650007953 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 577650007954 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 577650007955 CoA-ligase; Region: Ligase_CoA; pfam00549 577650007956 AAA domain; Region: AAA_17; pfam13207 577650007957 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 577650007958 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 577650007959 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 577650007960 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 577650007961 substrate binding site [chemical binding]; other site 577650007962 ligand binding site [chemical binding]; other site 577650007963 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 577650007964 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 577650007965 substrate binding site [chemical binding]; other site 577650007966 HNH endonuclease; Region: HNH_2; pfam13391 577650007967 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 577650007968 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 577650007969 CoenzymeA binding site [chemical binding]; other site 577650007970 subunit interaction site [polypeptide binding]; other site 577650007971 PHB binding site; other site 577650007972 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 577650007973 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 577650007974 pyridoxal 5'-phosphate binding site [chemical binding]; other site 577650007975 homodimer interface [polypeptide binding]; other site 577650007976 catalytic residue [active] 577650007977 chaperone protein DnaJ; Provisional; Region: PRK14298 577650007978 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 577650007979 HSP70 interaction site [polypeptide binding]; other site 577650007980 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 577650007981 substrate binding site [polypeptide binding]; other site 577650007982 dimer interface [polypeptide binding]; other site 577650007983 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 577650007984 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 577650007985 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 577650007986 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 577650007987 pyridoxal 5'-phosphate binding site [chemical binding]; other site 577650007988 catalytic residue [active] 577650007989 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 577650007990 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 577650007991 FeS/SAM binding site; other site 577650007992 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 577650007993 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; pfam10105 577650007994 AMIN domain; Region: AMIN; pfam11741 577650007995 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 577650007996 TPR motif; other site 577650007997 Tetratricopeptide repeat; Region: TPR_16; pfam13432 577650007998 binding surface 577650007999 Tetratricopeptide repeat; Region: TPR_16; pfam13432 577650008000 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 577650008001 TPR motif; other site 577650008002 binding surface 577650008003 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 577650008004 TPR motif; other site 577650008005 binding surface 577650008006 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 577650008007 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 577650008008 TPR motif; other site 577650008009 TPR repeat; Region: TPR_11; pfam13414 577650008010 binding surface 577650008011 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 577650008012 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 577650008013 TMP-binding site; other site 577650008014 ATP-binding site [chemical binding]; other site 577650008015 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 577650008016 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 577650008017 hypothetical protein; Reviewed; Region: PRK12497 577650008018 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 577650008019 RNA/DNA hybrid binding site [nucleotide binding]; other site 577650008020 active site 577650008021 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 577650008022 SAM-dependent RNA methyltransferase; Region: Methyltrn_RNA_4; pfam09936 577650008023 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 577650008024 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 577650008025 RimM N-terminal domain; Region: RimM; pfam01782 577650008026 PRC-barrel domain; Region: PRC; pfam05239 577650008027 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 577650008028 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 577650008029 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 577650008030 signal recognition particle protein; Provisional; Region: PRK10867 577650008031 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 577650008032 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 577650008033 P loop; other site 577650008034 GTP binding site [chemical binding]; other site 577650008035 Signal peptide binding domain; Region: SRP_SPB; pfam02978 577650008036 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 577650008037 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 577650008038 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 577650008039 lipoprotein signal peptidase; Provisional; Region: PRK14787 577650008040 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 577650008041 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 577650008042 active site 577650008043 HIGH motif; other site 577650008044 nucleotide binding site [chemical binding]; other site 577650008045 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 577650008046 active site 577650008047 KMSKS motif; other site 577650008048 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 577650008049 tRNA binding surface [nucleotide binding]; other site 577650008050 anticodon binding site; other site 577650008051 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 577650008052 DNA repair protein RadA; Provisional; Region: PRK11823 577650008053 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cd03440 577650008054 active site 1 [active] 577650008055 active site 2 [active] 577650008056 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 577650008057 thiosulfate reductase PhsA; Provisional; Region: PRK15488 577650008058 The MopB_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_Thiosulfate-R-like; cd02755 577650008059 putative [Fe4-S4] binding site [ion binding]; other site 577650008060 putative molybdopterin cofactor binding site [chemical binding]; other site 577650008061 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_CT_Thiosulfate-R-like; cd02778 577650008062 putative molybdopterin cofactor binding site; other site 577650008063 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 577650008064 4Fe-4S binding domain; Region: Fer4; pfam00037 577650008065 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 577650008066 ligand binding site [chemical binding]; other site 577650008067 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 577650008068 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 577650008069 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 577650008070 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 577650008071 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 577650008072 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 577650008073 active site 577650008074 PHP Thumb interface [polypeptide binding]; other site 577650008075 metal binding site [ion binding]; metal-binding site 577650008076 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 577650008077 generic binding surface II; other site 577650008078 generic binding surface I; other site 577650008079 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 577650008080 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 577650008081 TPP-binding site; other site 577650008082 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 577650008083 PYR/PP interface [polypeptide binding]; other site 577650008084 dimer interface [polypeptide binding]; other site 577650008085 TPP binding site [chemical binding]; other site 577650008086 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 577650008087 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 577650008088 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 577650008089 substrate binding pocket [chemical binding]; other site 577650008090 chain length determination region; other site 577650008091 substrate-Mg2+ binding site; other site 577650008092 catalytic residues [active] 577650008093 aspartate-rich region 1; other site 577650008094 active site lid residues [active] 577650008095 aspartate-rich region 2; other site 577650008096 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 577650008097 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 577650008098 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 577650008099 active site 577650008100 Int/Topo IB signature motif; other site 577650008101 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 577650008102 active site 577650008103 HslU subunit interaction site [polypeptide binding]; other site 577650008104 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 577650008105 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 577650008106 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 577650008107 Walker A motif; other site 577650008108 ATP binding site [chemical binding]; other site 577650008109 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 577650008110 Walker B motif; other site 577650008111 arginine finger; other site 577650008112 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 577650008113 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 577650008114 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 577650008115 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 577650008116 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 577650008117 ligand binding site [chemical binding]; other site 577650008118 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 577650008119 PAS domain; Region: PAS_9; pfam13426 577650008120 putative active site [active] 577650008121 heme pocket [chemical binding]; other site 577650008122 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 577650008123 GAF domain; Region: GAF_2; pfam13185 577650008124 PAS domain S-box; Region: sensory_box; TIGR00229 577650008125 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 577650008126 putative active site [active] 577650008127 heme pocket [chemical binding]; other site 577650008128 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 577650008129 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 577650008130 putative active site [active] 577650008131 heme pocket [chemical binding]; other site 577650008132 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 577650008133 dimer interface [polypeptide binding]; other site 577650008134 phosphorylation site [posttranslational modification] 577650008135 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 577650008136 ATP binding site [chemical binding]; other site 577650008137 Mg2+ binding site [ion binding]; other site 577650008138 G-X-G motif; other site 577650008139 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 577650008140 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 577650008141 active site 577650008142 phosphorylation site [posttranslational modification] 577650008143 intermolecular recognition site; other site 577650008144 dimerization interface [polypeptide binding]; other site 577650008145 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 577650008146 Putative phage tail protein; Region: Phage-tail_3; pfam13550 577650008147 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 577650008148 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 577650008149 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 577650008150 Mu-like prophage protein [General function prediction only]; Region: COG3941 577650008151 Protein of unknown function (DUF1320); Region: DUF1320; pfam07030 577650008152 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 577650008153 Mu-like prophage I protein; Region: Mu-like_Pro; pfam10123 577650008154 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 577650008155 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 577650008156 Protein of unknown function (DUF935); Region: DUF935; pfam06074 577650008157 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 577650008158 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 577650008159 phage/conjugal plasmid C-4 type zinc finger protein, TraR family; Region: C4_traR_proteo; TIGR02419 577650008160 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 577650008161 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 577650008162 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N_2; pfam13588 577650008163 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 577650008164 Mor transcription activator family; Region: Mor; cl02360 577650008165 Protein of unknown function (DUF1018); Region: DUF1018; cl01815 577650008166 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 577650008167 AAA domain; Region: AAA_22; pfam13401 577650008168 Integrase core domain; Region: rve; pfam00665 577650008169 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 577650008170 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 577650008171 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 577650008172 non-specific DNA binding site [nucleotide binding]; other site 577650008173 salt bridge; other site 577650008174 sequence-specific DNA binding site [nucleotide binding]; other site 577650008175 Predicted transcriptional regulator [Transcription]; Region: COG2932 577650008176 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 577650008177 Catalytic site [active] 577650008178 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 577650008179 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 577650008180 putative NAD(P) binding site [chemical binding]; other site 577650008181 active site 577650008182 putative substrate binding site [chemical binding]; other site 577650008183 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cl17181 577650008184 active site 577650008185 zinc binding site [ion binding]; other site 577650008186 Na+ binding site [ion binding]; other site 577650008187 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 577650008188 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 577650008189 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 577650008190 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 577650008191 active site 577650008192 phosphorylation site [posttranslational modification] 577650008193 intermolecular recognition site; other site 577650008194 dimerization interface [polypeptide binding]; other site 577650008195 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 577650008196 Walker A motif; other site 577650008197 ATP binding site [chemical binding]; other site 577650008198 Walker B motif; other site 577650008199 arginine finger; other site 577650008200 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 577650008201 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 577650008202 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 577650008203 putative active site [active] 577650008204 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 577650008205 dimer interface [polypeptide binding]; other site 577650008206 phosphorylation site [posttranslational modification] 577650008207 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 577650008208 ATP binding site [chemical binding]; other site 577650008209 Mg2+ binding site [ion binding]; other site 577650008210 G-X-G motif; other site 577650008211 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 577650008212 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 577650008213 hinge; other site 577650008214 active site 577650008215 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 577650008216 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 577650008217 S-adenosylmethionine binding site [chemical binding]; other site 577650008218 peptide chain release factor 1; Validated; Region: prfA; PRK00591 577650008219 This domain is found in peptide chain release factors; Region: PCRF; smart00937 577650008220 RF-1 domain; Region: RF-1; pfam00472 577650008221 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 577650008222 transcription termination factor Rho; Provisional; Region: rho; PRK09376 577650008223 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 577650008224 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 577650008225 RNA binding site [nucleotide binding]; other site 577650008226 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 577650008227 multimer interface [polypeptide binding]; other site 577650008228 Walker A motif; other site 577650008229 ATP binding site [chemical binding]; other site 577650008230 Walker B motif; other site 577650008231 dephospho-CoA kinase; Region: TIGR00152 577650008232 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 577650008233 CoA-binding site [chemical binding]; other site 577650008234 ATP-binding [chemical binding]; other site 577650008235 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 577650008236 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 577650008237 RNA binding surface [nucleotide binding]; other site 577650008238 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 577650008239 active site 577650008240 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 577650008241 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 577650008242 putative active site [active] 577650008243 catalytic residue [active] 577650008244 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 577650008245 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 577650008246 5S rRNA interface [nucleotide binding]; other site 577650008247 CTC domain interface [polypeptide binding]; other site 577650008248 L16 interface [polypeptide binding]; other site 577650008249 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 577650008250 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 577650008251 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 577650008252 active site 577650008253 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 577650008254 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 577650008255 Domain of unknown function (DUF1844); Region: DUF1844; pfam08899 577650008256 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 577650008257 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 577650008258 HIGH motif; other site 577650008259 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 577650008260 active site 577650008261 KMSKS motif; other site 577650008262 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 577650008263 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 577650008264 active site 577650008265 HIGH motif; other site 577650008266 nucleotide binding site [chemical binding]; other site 577650008267 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 577650008268 KMSKS motif; other site 577650008269 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 577650008270 FeoA domain; Region: FeoA; pfam04023 577650008271 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 577650008272 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 577650008273 G1 box; other site 577650008274 GTP/Mg2+ binding site [chemical binding]; other site 577650008275 Switch I region; other site 577650008276 G2 box; other site 577650008277 G3 box; other site 577650008278 Switch II region; other site 577650008279 G4 box; other site 577650008280 G5 box; other site 577650008281 Nucleoside recognition; Region: Gate; pfam07670 577650008282 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 577650008283 Nucleoside recognition; Region: Gate; pfam07670 577650008284 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 577650008285 intersubunit interface [polypeptide binding]; other site 577650008286 active site 577650008287 Zn2+ binding site [ion binding]; other site 577650008288 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 577650008289 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 577650008290 HDOD domain; Region: HDOD; pfam08668 577650008291 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 577650008292 Zn2+ binding site [ion binding]; other site 577650008293 Mg2+ binding site [ion binding]; other site 577650008294 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 577650008295 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 577650008296 dimer interface [polypeptide binding]; other site 577650008297 phosphorylation site [posttranslational modification] 577650008298 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 577650008299 ATP binding site [chemical binding]; other site 577650008300 Mg2+ binding site [ion binding]; other site 577650008301 G-X-G motif; other site 577650008302 Response regulator receiver domain; Region: Response_reg; pfam00072 577650008303 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 577650008304 active site 577650008305 phosphorylation site [posttranslational modification] 577650008306 intermolecular recognition site; other site 577650008307 dimerization interface [polypeptide binding]; other site 577650008308 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 577650008309 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 577650008310 putative active site [active] 577650008311 heme pocket [chemical binding]; other site 577650008312 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 577650008313 dimer interface [polypeptide binding]; other site 577650008314 phosphorylation site [posttranslational modification] 577650008315 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 577650008316 ATP binding site [chemical binding]; other site 577650008317 Mg2+ binding site [ion binding]; other site 577650008318 G-X-G motif; other site 577650008319 Response regulator receiver domain; Region: Response_reg; pfam00072 577650008320 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 577650008321 active site 577650008322 phosphorylation site [posttranslational modification] 577650008323 intermolecular recognition site; other site 577650008324 dimerization interface [polypeptide binding]; other site 577650008325 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 577650008326 signal peptide peptidase SppA, 67K type; Region: SppA_67K; TIGR00705 577650008327 tandem repeat interface [polypeptide binding]; other site 577650008328 oligomer interface [polypeptide binding]; other site 577650008329 active site residues [active] 577650008330 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 577650008331 tandem repeat interface [polypeptide binding]; other site 577650008332 oligomer interface [polypeptide binding]; other site 577650008333 active site residues [active] 577650008334 hypothetical protein; Reviewed; Region: PRK09588 577650008335 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 577650008336 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG3366 577650008337 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 577650008338 Ligand Binding Site [chemical binding]; other site 577650008339 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 577650008340 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 577650008341 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 577650008342 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 577650008343 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 577650008344 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 577650008345 classical (c) SDRs; Region: SDR_c; cd05233 577650008346 NAD(P) binding site [chemical binding]; other site 577650008347 active site 577650008348 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 577650008349 Uncharacterized conserved protein [Function unknown]; Region: COG1624 577650008350 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 577650008351 MltA-interacting protein MipA; Region: MipA; cl01504 577650008352 Membrane transport protein; Region: Mem_trans; cl09117 577650008353 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 577650008354 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 577650008355 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 577650008356 active site 577650008357 phosphorylation site [posttranslational modification] 577650008358 intermolecular recognition site; other site 577650008359 dimerization interface [polypeptide binding]; other site 577650008360 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 577650008361 Walker A motif; other site 577650008362 ATP binding site [chemical binding]; other site 577650008363 Walker B motif; other site 577650008364 arginine finger; other site 577650008365 Cache domain; Region: Cache_1; pfam02743 577650008366 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 577650008367 dimerization interface [polypeptide binding]; other site 577650008368 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 577650008369 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 577650008370 dimer interface [polypeptide binding]; other site 577650008371 putative CheW interface [polypeptide binding]; other site 577650008372 Cache domain; Region: Cache_1; pfam02743 577650008373 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 577650008374 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 577650008375 dimerization interface [polypeptide binding]; other site 577650008376 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 577650008377 ATP binding site [chemical binding]; other site 577650008378 Mg2+ binding site [ion binding]; other site 577650008379 G-X-G motif; other site 577650008380 Response regulator receiver domain; Region: Response_reg; pfam00072 577650008381 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 577650008382 active site 577650008383 phosphorylation site [posttranslational modification] 577650008384 intermolecular recognition site; other site 577650008385 dimerization interface [polypeptide binding]; other site 577650008386 CHASE4 domain; Region: CHASE4; cl01308 577650008387 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 577650008388 dimerization interface [polypeptide binding]; other site 577650008389 PAS domain; Region: PAS; smart00091 577650008390 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 577650008391 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 577650008392 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 577650008393 putative active site [active] 577650008394 heme pocket [chemical binding]; other site 577650008395 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 577650008396 dimer interface [polypeptide binding]; other site 577650008397 phosphorylation site [posttranslational modification] 577650008398 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 577650008399 ATP binding site [chemical binding]; other site 577650008400 Mg2+ binding site [ion binding]; other site 577650008401 G-X-G motif; other site 577650008402 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 577650008403 Response regulator receiver domain; Region: Response_reg; pfam00072 577650008404 active site 577650008405 phosphorylation site [posttranslational modification] 577650008406 intermolecular recognition site; other site 577650008407 dimerization interface [polypeptide binding]; other site 577650008408 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 577650008409 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 577650008410 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 577650008411 dimerization interface [polypeptide binding]; other site 577650008412 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 577650008413 PAS domain; Region: PAS_9; pfam13426 577650008414 putative active site [active] 577650008415 heme pocket [chemical binding]; other site 577650008416 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 577650008417 dimer interface [polypeptide binding]; other site 577650008418 phosphorylation site [posttranslational modification] 577650008419 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 577650008420 ATP binding site [chemical binding]; other site 577650008421 Mg2+ binding site [ion binding]; other site 577650008422 G-X-G motif; other site 577650008423 Response regulator receiver domain; Region: Response_reg; pfam00072 577650008424 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 577650008425 active site 577650008426 phosphorylation site [posttranslational modification] 577650008427 intermolecular recognition site; other site 577650008428 dimerization interface [polypeptide binding]; other site 577650008429 Hpt domain; Region: Hpt; pfam01627 577650008430 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 577650008431 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 577650008432 active site 577650008433 phosphorylation site [posttranslational modification] 577650008434 intermolecular recognition site; other site 577650008435 dimerization interface [polypeptide binding]; other site 577650008436 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 577650008437 Zn2+ binding site [ion binding]; other site 577650008438 Mg2+ binding site [ion binding]; other site 577650008439 PAS domain; Region: PAS_9; pfam13426 577650008440 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 577650008441 putative active site [active] 577650008442 heme pocket [chemical binding]; other site 577650008443 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 577650008444 GAF domain; Region: GAF; pfam01590 577650008445 PAS fold; Region: PAS_3; pfam08447 577650008446 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 577650008447 PAS fold; Region: PAS_3; pfam08447 577650008448 putative active site [active] 577650008449 heme pocket [chemical binding]; other site 577650008450 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 577650008451 PAS domain; Region: PAS_9; pfam13426 577650008452 putative active site [active] 577650008453 heme pocket [chemical binding]; other site 577650008454 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 577650008455 dimer interface [polypeptide binding]; other site 577650008456 phosphorylation site [posttranslational modification] 577650008457 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 577650008458 ATP binding site [chemical binding]; other site 577650008459 Mg2+ binding site [ion binding]; other site 577650008460 G-X-G motif; other site 577650008461 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 577650008462 Response regulator receiver domain; Region: Response_reg; pfam00072 577650008463 active site 577650008464 phosphorylation site [posttranslational modification] 577650008465 intermolecular recognition site; other site 577650008466 dimerization interface [polypeptide binding]; other site 577650008467 Response regulator receiver domain; Region: Response_reg; pfam00072 577650008468 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 577650008469 active site 577650008470 phosphorylation site [posttranslational modification] 577650008471 intermolecular recognition site; other site 577650008472 dimerization interface [polypeptide binding]; other site 577650008473 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 577650008474 putative binding surface; other site 577650008475 active site 577650008476 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 577650008477 intracellular protease, PfpI family; Region: PfpI; TIGR01382 577650008478 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 577650008479 conserved cys residue [active] 577650008480 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 577650008481 CoA-transferase family III; Region: CoA_transf_3; pfam02515 577650008482 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 577650008483 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 577650008484 PAS domain S-box; Region: sensory_box; TIGR00229 577650008485 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 577650008486 putative active site [active] 577650008487 heme pocket [chemical binding]; other site 577650008488 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 577650008489 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 577650008490 metal binding site [ion binding]; metal-binding site 577650008491 active site 577650008492 I-site; other site 577650008493 Hemerythrin; Region: Hemerythrin; cd12107 577650008494 Fe binding site [ion binding]; other site 577650008495 GAF domain; Region: GAF_3; pfam13492 577650008496 GAF domain; Region: GAF_2; pfam13185 577650008497 PAS domain S-box; Region: sensory_box; TIGR00229 577650008498 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 577650008499 putative active site [active] 577650008500 heme pocket [chemical binding]; other site 577650008501 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 577650008502 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 577650008503 metal binding site [ion binding]; metal-binding site 577650008504 active site 577650008505 I-site; other site 577650008506 FIST N domain; Region: FIST; pfam08495 577650008507 Uncharacterized conserved protein [Function unknown]; Region: COG3287 577650008508 FIST C domain; Region: FIST_C; pfam10442 577650008509 Peptidase family M48; Region: Peptidase_M48; cl12018 577650008510 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 577650008511 binding surface 577650008512 Tetratricopeptide repeat; Region: TPR_16; pfam13432 577650008513 TPR motif; other site 577650008514 Met-10+ like-protein; Region: Met_10; pfam02475 577650008515 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 577650008516 S-adenosylmethionine binding site [chemical binding]; other site 577650008517 TPR repeat; Region: TPR_11; pfam13414 577650008518 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 577650008519 binding surface 577650008520 TPR motif; other site 577650008521 TPR repeat; Region: TPR_11; pfam13414 577650008522 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 577650008523 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 577650008524 PYR/PP interface [polypeptide binding]; other site 577650008525 dimer interface [polypeptide binding]; other site 577650008526 TPP binding site [chemical binding]; other site 577650008527 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 577650008528 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 577650008529 TPP-binding site [chemical binding]; other site 577650008530 dimer interface [polypeptide binding]; other site 577650008531 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 577650008532 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 577650008533 putative valine binding site [chemical binding]; other site 577650008534 dimer interface [polypeptide binding]; other site 577650008535 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 577650008536 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 577650008537 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 577650008538 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 577650008539 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 577650008540 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 577650008541 S-adenosylmethionine binding site [chemical binding]; other site 577650008542 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 577650008543 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 577650008544 active site 577650008545 (T/H)XGH motif; other site 577650008546 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 577650008547 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 577650008548 iron-sulfur cluster [ion binding]; other site 577650008549 [2Fe-2S] cluster binding site [ion binding]; other site 577650008550 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 577650008551 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 577650008552 putative glucosyl-3-phosphoglycerate synthase; Provisional; Region: PRK13915 577650008553 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 577650008554 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 577650008555 active site 577650008556 phosphorylation site [posttranslational modification] 577650008557 intermolecular recognition site; other site 577650008558 dimerization interface [polypeptide binding]; other site 577650008559 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 577650008560 DNA binding site [nucleotide binding] 577650008561 FecR protein; Region: FecR; pfam04773 577650008562 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 577650008563 Interdomain contacts; other site 577650008564 Cytokine receptor motif; other site 577650008565 CHASE2 domain; Region: CHASE2; pfam05226 577650008566 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 577650008567 dimer interface [polypeptide binding]; other site 577650008568 phosphorylation site [posttranslational modification] 577650008569 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 577650008570 ATP binding site [chemical binding]; other site 577650008571 G-X-G motif; other site 577650008572 Dicarboxylate transport; Region: DctA-YdbH; pfam11739 577650008573 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 577650008574 Protein of unknown function (DUF1318); Region: DUF1318; pfam07027 577650008575 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 577650008576 dimerization interface [polypeptide binding]; other site 577650008577 putative DNA binding site [nucleotide binding]; other site 577650008578 putative Zn2+ binding site [ion binding]; other site 577650008579 bifunctional acyl-[acyl carrier protein] synthetase/2-acylglycerophosphoethanolamine acyltransferase; Validated; Region: PRK08043 577650008580 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 577650008581 putative acyl-acceptor binding pocket; other site 577650008582 C-terminal domain of the acyl-acyl carrier protein synthetase (also called 2-acylglycerophosphoethanolamine acyltransferase, Aas); Region: AAS_C; cd05909 577650008583 acyl-activating enzyme (AAE) consensus motif; other site 577650008584 putative AMP binding site [chemical binding]; other site 577650008585 H+ Antiporter protein; Region: 2A0121; TIGR00900 577650008586 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 577650008587 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 577650008588 putative acyl-acceptor binding pocket; other site 577650008589 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 577650008590 ABC1 family; Region: ABC1; pfam03109 577650008591 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 577650008592 active site 577650008593 ATP binding site [chemical binding]; other site 577650008594 ABC1 family; Region: ABC1; cl17513 577650008595 Uncharacterized conserved protein [Function unknown]; Region: COG3937 577650008596 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 577650008597 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 577650008598 Cl- selectivity filter; other site 577650008599 Cl- binding residues [ion binding]; other site 577650008600 pore gating glutamate residue; other site 577650008601 dimer interface [polypeptide binding]; other site 577650008602 FOG: CBS domain [General function prediction only]; Region: COG0517 577650008603 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc2; cd04613 577650008604 Protein of unknown function (DUF2811); Region: DUF2811; pfam10929 577650008605 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 577650008606 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 577650008607 dimer interface [polypeptide binding]; other site 577650008608 PYR/PP interface [polypeptide binding]; other site 577650008609 TPP binding site [chemical binding]; other site 577650008610 substrate binding site [chemical binding]; other site 577650008611 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 577650008612 Domain of unknown function; Region: EKR; pfam10371 577650008613 4Fe-4S binding domain; Region: Fer4; pfam00037 577650008614 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 577650008615 TPP-binding site [chemical binding]; other site 577650008616 dimer interface [polypeptide binding]; other site 577650008617 Flagellin N-methylase; Region: FliB; pfam03692 577650008618 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 577650008619 histidinol phosphate phosphatase, HisJ family; Region: hisJ_fam; TIGR01856 577650008620 active site 577650008621 dimer interface [polypeptide binding]; other site 577650008622 HEAT repeats; Region: HEAT_2; pfam13646 577650008623 HEAT repeats; Region: HEAT_2; pfam13646 577650008624 Response regulator receiver domain; Region: Response_reg; pfam00072 577650008625 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 577650008626 active site 577650008627 phosphorylation site [posttranslational modification] 577650008628 intermolecular recognition site; other site 577650008629 dimerization interface [polypeptide binding]; other site 577650008630 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 577650008631 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 577650008632 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 577650008633 Response regulator receiver domain; Region: Response_reg; pfam00072 577650008634 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 577650008635 active site 577650008636 phosphorylation site [posttranslational modification] 577650008637 intermolecular recognition site; other site 577650008638 dimerization interface [polypeptide binding]; other site 577650008639 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 577650008640 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 577650008641 dimer interface [polypeptide binding]; other site 577650008642 phosphorylation site [posttranslational modification] 577650008643 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 577650008644 ATP binding site [chemical binding]; other site 577650008645 Mg2+ binding site [ion binding]; other site 577650008646 G-X-G motif; other site 577650008647 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 577650008648 CoenzymeA binding site [chemical binding]; other site 577650008649 subunit interaction site [polypeptide binding]; other site 577650008650 PHB binding site; other site 577650008651 PilZ domain; Region: PilZ; pfam07238 577650008652 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 577650008653 active site 577650008654 cofactor-independent phosphoglycerate mutase; Provisional; Region: PRK04200 577650008655 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: PhosphMutase; cl17294 577650008656 homoserine dehydrogenase; Provisional; Region: PRK06349 577650008657 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 577650008658 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 577650008659 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 577650008660 adenylate kinase; Provisional; Region: PRK14529 577650008661 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 577650008662 AMP-binding site [chemical binding]; other site 577650008663 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 577650008664 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 577650008665 dimer interface [polypeptide binding]; other site 577650008666 active site 577650008667 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 577650008668 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 577650008669 domain interfaces; other site 577650008670 active site 577650008671 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 577650008672 Diphthamide biosynthesis methyltransferase [Translation, ribosomal structure and biogenesis]; Region: DPH5; COG1798 577650008673 active site 577650008674 SAM binding site [chemical binding]; other site 577650008675 homodimer interface [polypeptide binding]; other site 577650008676 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 577650008677 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 577650008678 active site 577650008679 acetyl-CoA decarbonylase/synthase complex subunit gamma; Provisional; Region: PRK04165 577650008680 Family description; Region: VCBS; pfam13517 577650008681 Family description; Region: VCBS; pfam13517 577650008682 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 577650008683 active site 577650008684 phosphorylation site [posttranslational modification] 577650008685 intermolecular recognition site; other site 577650008686 dimerization interface [polypeptide binding]; other site 577650008687 GAF domain; Region: GAF_2; pfam13185 577650008688 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 577650008689 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 577650008690 dimer interface [polypeptide binding]; other site 577650008691 phosphorylation site [posttranslational modification] 577650008692 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 577650008693 ATP binding site [chemical binding]; other site 577650008694 Mg2+ binding site [ion binding]; other site 577650008695 G-X-G motif; other site 577650008696 HEAT repeats; Region: HEAT_2; pfam13646 577650008697 E-Z type HEAT repeats; Region: EZ_HEAT; smart00567 577650008698 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 577650008699 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 577650008700 ATP binding site [chemical binding]; other site 577650008701 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 577650008702 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 577650008703 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 577650008704 substrate binding pocket [chemical binding]; other site 577650008705 chain length determination region; other site 577650008706 substrate-Mg2+ binding site; other site 577650008707 catalytic residues [active] 577650008708 aspartate-rich region 1; other site 577650008709 active site lid residues [active] 577650008710 aspartate-rich region 2; other site 577650008711 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 577650008712 NodB motif; other site 577650008713 putative active site [active] 577650008714 putative catalytic site [active] 577650008715 Zn binding site [ion binding]; other site 577650008716 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 577650008717 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 577650008718 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 577650008719 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 577650008720 Walker A motif; other site 577650008721 ATP binding site [chemical binding]; other site 577650008722 Walker B motif; other site 577650008723 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 577650008724 (p)ppGpp synthetase, RelA/SpoT family; Region: spoT_relA; TIGR00691 577650008725 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 577650008726 Zn2+ binding site [ion binding]; other site 577650008727 Mg2+ binding site [ion binding]; other site 577650008728 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 577650008729 synthetase active site [active] 577650008730 NTP binding site [chemical binding]; other site 577650008731 metal binding site [ion binding]; metal-binding site 577650008732 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 577650008733 ribonuclease R; Region: RNase_R; TIGR02063 577650008734 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 577650008735 RNB domain; Region: RNB; pfam00773 577650008736 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 577650008737 RNA binding site [nucleotide binding]; other site 577650008738 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 577650008739 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 577650008740 Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]; Region: COG2231 577650008741 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 577650008742 minor groove reading motif; other site 577650008743 helix-hairpin-helix signature motif; other site 577650008744 substrate binding pocket [chemical binding]; other site 577650008745 active site 577650008746 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 577650008747 phosphofructokinase; Region: PFK_mixed; TIGR02483 577650008748 active site 577650008749 ADP/pyrophosphate binding site [chemical binding]; other site 577650008750 dimerization interface [polypeptide binding]; other site 577650008751 allosteric effector site; other site 577650008752 fructose-1,6-bisphosphate binding site; other site 577650008753 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 577650008754 Clp amino terminal domain; Region: Clp_N; pfam02861 577650008755 Clp amino terminal domain; Region: Clp_N; pfam02861 577650008756 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 577650008757 Walker A motif; other site 577650008758 ATP binding site [chemical binding]; other site 577650008759 Walker B motif; other site 577650008760 arginine finger; other site 577650008761 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 577650008762 Walker A motif; other site 577650008763 ATP binding site [chemical binding]; other site 577650008764 Walker B motif; other site 577650008765 arginine finger; other site 577650008766 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 577650008767 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 577650008768 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 577650008769 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 577650008770 Surface antigen; Region: Bac_surface_Ag; pfam01103 577650008771 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 577650008772 Family of unknown function (DUF490); Region: DUF490; pfam04357 577650008773 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 577650008774 Rubredoxin; Region: Rubredoxin; pfam00301 577650008775 iron binding site [ion binding]; other site 577650008776 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 577650008777 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 577650008778 substrate binding pocket [chemical binding]; other site 577650008779 dimer interface [polypeptide binding]; other site 577650008780 inhibitor binding site; inhibition site 577650008781 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 577650008782 B12 binding site [chemical binding]; other site 577650008783 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 577650008784 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 577650008785 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 577650008786 glucose-1-phosphate adenylyltransferase; Region: glgC; TIGR02091 577650008787 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 577650008788 Substrate binding site; other site 577650008789 Mg++ binding site; other site 577650008790 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 577650008791 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 577650008792 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 577650008793 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 577650008794 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 577650008795 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 577650008796 tRNA; other site 577650008797 putative tRNA binding site [nucleotide binding]; other site 577650008798 putative NADP binding site [chemical binding]; other site 577650008799 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 577650008800 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 577650008801 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 577650008802 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 577650008803 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 577650008804 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 577650008805 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 577650008806 catalytic residues [active] 577650008807 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 577650008808 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 577650008809 SurA N-terminal domain; Region: SurA_N; pfam09312 577650008810 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 577650008811 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 577650008812 non-specific DNA binding site [nucleotide binding]; other site 577650008813 salt bridge; other site 577650008814 sequence-specific DNA binding site [nucleotide binding]; other site 577650008815 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 577650008816 Recombination protein O N terminal; Region: RecO_N; pfam11967 577650008817 Recombination protein O C terminal; Region: RecO_C; pfam02565 577650008818 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]; Region: COG5309 577650008819 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 577650008820 NdvC_like proteins in this family are putative bacterial beta-(1,6)-glucosyltransferase; Region: CESA_NdvC_like; cd06435 577650008821 Ligand binding site; other site 577650008822 DXD motif; other site 577650008823 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 577650008824 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 577650008825 ATP binding site [chemical binding]; other site 577650008826 putative Mg++ binding site [ion binding]; other site 577650008827 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 577650008828 nucleotide binding region [chemical binding]; other site 577650008829 ATP-binding site [chemical binding]; other site 577650008830 SurA N-terminal domain; Region: SurA_N_3; cl07813 577650008831 periplasmic folding chaperone; Provisional; Region: PRK10788 577650008832 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 577650008833 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 577650008834 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 577650008835 DsrC like protein; Region: DsrC; pfam04358 577650008836 Acylphosphatase; Region: Acylphosphatase; pfam00708 577650008837 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 577650008838 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 577650008839 nucleotide binding pocket [chemical binding]; other site 577650008840 K-X-D-G motif; other site 577650008841 catalytic site [active] 577650008842 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 577650008843 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 577650008844 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 577650008845 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 577650008846 Dimer interface [polypeptide binding]; other site 577650008847 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 577650008848 active site 1 [active] 577650008849 dimer interface [polypeptide binding]; other site 577650008850 hexamer interface [polypeptide binding]; other site 577650008851 active site 2 [active] 577650008852 UDP-glucose 4-epimerase; Region: PLN02240 577650008853 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 577650008854 NAD binding site [chemical binding]; other site 577650008855 homodimer interface [polypeptide binding]; other site 577650008856 active site 577650008857 substrate binding site [chemical binding]; other site 577650008858 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 577650008859 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 577650008860 S-adenosylmethionine binding site [chemical binding]; other site 577650008861 Methyltransferase domain; Region: Methyltransf_23; pfam13489 577650008862 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 577650008863 S-adenosylmethionine binding site [chemical binding]; other site 577650008864 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 577650008865 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 577650008866 trmE is a tRNA modification GTPase; Region: trmE; cd04164 577650008867 G1 box; other site 577650008868 GTP/Mg2+ binding site [chemical binding]; other site 577650008869 Switch I region; other site 577650008870 G2 box; other site 577650008871 Switch II region; other site 577650008872 G3 box; other site 577650008873 G4 box; other site 577650008874 G5 box; other site 577650008875 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 577650008876 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 577650008877 G-X-X-G motif; other site 577650008878 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 577650008879 RxxxH motif; other site 577650008880 membrane protein insertase; Provisional; Region: PRK01318 577650008881 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 577650008882 Haemolytic domain; Region: Haemolytic; pfam01809 577650008883 Ribonuclease P; Region: Ribonuclease_P; pfam00825 577650008884 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 577650008885 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 577650008886 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 577650008887 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 577650008888 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 577650008889 IHF - DNA interface [nucleotide binding]; other site 577650008890 IHF dimer interface [polypeptide binding]; other site 577650008891 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 577650008892 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 577650008893 active site 577650008894 phosphorylation site [posttranslational modification] 577650008895 intermolecular recognition site; other site 577650008896 dimerization interface [polypeptide binding]; other site 577650008897 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 577650008898 DNA binding residues [nucleotide binding] 577650008899 dimerization interface [polypeptide binding]; other site 577650008900 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 577650008901 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 577650008902 minor groove reading motif; other site 577650008903 helix-hairpin-helix signature motif; other site 577650008904 substrate binding pocket [chemical binding]; other site 577650008905 active site 577650008906 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 577650008907 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 577650008908 putative catalytic site [active] 577650008909 putative metal binding site [ion binding]; other site 577650008910 putative phosphate binding site [ion binding]; other site 577650008911 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeC; cd03378 577650008912 active site clefts [active] 577650008913 zinc binding site [ion binding]; other site 577650008914 dimer interface [polypeptide binding]; other site 577650008915 exopolysaccharide/PEP-CTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 577650008916 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 577650008917 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 577650008918 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 577650008919 Walker A motif; other site 577650008920 ATP binding site [chemical binding]; other site 577650008921 Walker B motif; other site 577650008922 arginine finger; other site 577650008923 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 577650008924 Chain length determinant protein; Region: Wzz; pfam02706 577650008925 bis(5'-nucleosyl)-tetraphosphatase PrpE; Provisional; Region: PRK13625 577650008926 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 577650008927 active site 577650008928 metal binding site [ion binding]; metal-binding site 577650008929 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 577650008930 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 577650008931 motif 1; other site 577650008932 dimer interface [polypeptide binding]; other site 577650008933 active site 577650008934 motif 2; other site 577650008935 motif 3; other site 577650008936 elongation factor P; Validated; Region: PRK00529 577650008937 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 577650008938 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 577650008939 RNA binding site [nucleotide binding]; other site 577650008940 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 577650008941 RNA binding site [nucleotide binding]; other site 577650008942 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 577650008943 active site 577650008944 metal binding site [ion binding]; metal-binding site 577650008945 homotetramer interface [polypeptide binding]; other site 577650008946 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 577650008947 nucleotide binding site/active site [active] 577650008948 HIT family signature motif; other site 577650008949 catalytic residue [active] 577650008950 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 577650008951 MutS domain I; Region: MutS_I; pfam01624 577650008952 MutS domain II; Region: MutS_II; pfam05188 577650008953 MutS domain III; Region: MutS_III; pfam05192 577650008954 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 577650008955 Walker A/P-loop; other site 577650008956 ATP binding site [chemical binding]; other site 577650008957 Q-loop/lid; other site 577650008958 ABC transporter signature motif; other site 577650008959 Walker B; other site 577650008960 D-loop; other site 577650008961 H-loop/switch region; other site 577650008962 AMIN domain; Region: AMIN; pfam11741 577650008963 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 577650008964 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 577650008965 active site 577650008966 metal binding site [ion binding]; metal-binding site 577650008967 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13446 577650008968 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 577650008969 gamma subunit interface [polypeptide binding]; other site 577650008970 epsilon subunit interface [polypeptide binding]; other site 577650008971 LBP interface [polypeptide binding]; other site 577650008972 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 577650008973 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 577650008974 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 577650008975 alpha subunit interaction interface [polypeptide binding]; other site 577650008976 Walker A motif; other site 577650008977 ATP binding site [chemical binding]; other site 577650008978 Walker B motif; other site 577650008979 inhibitor binding site; inhibition site 577650008980 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 577650008981 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 577650008982 core domain interface [polypeptide binding]; other site 577650008983 delta subunit interface [polypeptide binding]; other site 577650008984 epsilon subunit interface [polypeptide binding]; other site 577650008985 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 577650008986 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 577650008987 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 577650008988 beta subunit interaction interface [polypeptide binding]; other site 577650008989 Walker A motif; other site 577650008990 ATP binding site [chemical binding]; other site 577650008991 Walker B motif; other site 577650008992 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 577650008993 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13429 577650008994 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 577650008995 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 577650008996 ATP synthase B/B' CF(0); Region: ATP-synt_B; pfam00430 577650008997 F0F1 ATP synthase subunit B'; Validated; Region: PRK07353 577650008998 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 577650008999 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 577650009000 3-beta hydroxysteroid dehydrogenase/isomerase family; Region: 3Beta_HSD; pfam01073 577650009001 NAD(P) binding site [chemical binding]; other site 577650009002 active site 577650009003 peptide synthase; Provisional; Region: PRK09274 577650009004 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_1; cd05910 577650009005 acyl-activating enzyme (AAE) consensus motif; other site 577650009006 putative AMP binding site [chemical binding]; other site 577650009007 putative active site [active] 577650009008 putative CoA binding site [chemical binding]; other site 577650009009 haloalkane dehalogenase; Provisional; Region: PRK03592 577650009010 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 577650009011 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09258 577650009012 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 577650009013 active site 577650009014 Protein of unknown function (DUF1232); Region: DUF1232; pfam06803 577650009015 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 577650009016 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 577650009017 NAD(P) binding site [chemical binding]; other site 577650009018 active site 577650009019 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 577650009020 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 577650009021 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 577650009022 NAD(P) binding site [chemical binding]; other site 577650009023 active site 577650009024 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 577650009025 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 577650009026 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 577650009027 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 577650009028 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 577650009029 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 577650009030 dimer interface [polypeptide binding]; other site 577650009031 active site 577650009032 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 577650009033 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 577650009034 motif 1; other site 577650009035 active site 577650009036 motif 2; other site 577650009037 motif 3; other site 577650009038 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 577650009039 DHHA1 domain; Region: DHHA1; pfam02272 577650009040 acetyl-CoA synthetase; Provisional; Region: PRK00174 577650009041 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 577650009042 active site 577650009043 CoA binding site [chemical binding]; other site 577650009044 acyl-activating enzyme (AAE) consensus motif; other site 577650009045 AMP binding site [chemical binding]; other site 577650009046 acetate binding site [chemical binding]; other site 577650009047 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 577650009048 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 577650009049 PAS domain; Region: PAS_9; pfam13426 577650009050 putative active site [active] 577650009051 heme pocket [chemical binding]; other site 577650009052 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 577650009053 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 577650009054 metal binding site [ion binding]; metal-binding site 577650009055 active site 577650009056 I-site; other site 577650009057 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 577650009058 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 577650009059 Paraquat-inducible protein A; Region: PqiA; pfam04403 577650009060 Paraquat-inducible protein A; Region: PqiA; pfam04403 577650009061 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 577650009062 mce related protein; Region: MCE; pfam02470 577650009063 mce related protein; Region: MCE; pfam02470 577650009064 mce related protein; Region: MCE; pfam02470 577650009065 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 577650009066 mce related protein; Region: MCE; pfam02470 577650009067 mce related protein; Region: MCE; pfam02470 577650009068 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 577650009069 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 577650009070 motif II; other site 577650009071 Exonuclease-Endonuclease-Phosphatase domain; uncharacterized family 1; Region: EEP-1; cd09083 577650009072 putative catalytic site [active] 577650009073 putative metal binding site [ion binding]; other site 577650009074 putative phosphate binding site [ion binding]; other site 577650009075 Endoglucanase [Carbohydrate transport and metabolism]; Region: BglC; COG2730 577650009076 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 577650009077 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 577650009078 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 577650009079 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 577650009080 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 577650009081 beta-galactosidase; Region: BGL; TIGR03356 577650009082 Geminivirus Rep catalytic domain; Region: Gemini_AL1; pfam00799 577650009083 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 577650009084 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 577650009085 catalytic residues [active] 577650009086 catalytic nucleophile [active] 577650009087 Recombinase; Region: Recombinase; pfam07508 577650009088 INT_SG2, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 2, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinases and phage-related integrases. Some have N-terminal domains, which show little sequence...; Region: INT_SG2_C; cd01184 577650009089 Int/Topo IB signature motif; other site 577650009090 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 577650009091 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 577650009092 ring oligomerisation interface [polypeptide binding]; other site 577650009093 ATP/Mg binding site [chemical binding]; other site 577650009094 stacking interactions; other site 577650009095 hinge regions; other site 577650009096 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 577650009097 oligomerisation interface [polypeptide binding]; other site 577650009098 mobile loop; other site 577650009099 roof hairpin; other site 577650009100 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 577650009101 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 577650009102 homodimer interface [polypeptide binding]; other site 577650009103 substrate-cofactor binding pocket; other site 577650009104 catalytic residue [active] 577650009105 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 577650009106 HAMP domain; Region: HAMP; pfam00672 577650009107 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 577650009108 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 577650009109 dimer interface [polypeptide binding]; other site 577650009110 putative CheW interface [polypeptide binding]; other site 577650009111 FUN14 family; Region: FUN14; cl01015 577650009112 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 577650009113 nucleoside/Zn binding site; other site 577650009114 dimer interface [polypeptide binding]; other site 577650009115 catalytic motif [active] 577650009116 Protein of unknown function, DUF486; Region: DUF486; cl01236 577650009117 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 577650009118 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 577650009119 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 577650009120 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 577650009121 metal-binding site [ion binding] 577650009122 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 577650009123 metal-binding site [ion binding] 577650009124 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 577650009125 metal-binding site [ion binding] 577650009126 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 577650009127 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 577650009128 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 577650009129 motif II; other site 577650009130 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 577650009131 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 577650009132 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 577650009133 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 577650009134 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 577650009135 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 577650009136 FeS/SAM binding site; other site 577650009137 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 577650009138 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 577650009139 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 577650009140 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 577650009141 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 577650009142 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 577650009143 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 577650009144 active site 577650009145 phosphorylation site [posttranslational modification] 577650009146 intermolecular recognition site; other site 577650009147 dimerization interface [polypeptide binding]; other site 577650009148 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 577650009149 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 577650009150 hexamer interface [polypeptide binding]; other site 577650009151 ligand binding site [chemical binding]; other site 577650009152 putative active site [active] 577650009153 NAD(P) binding site [chemical binding]; other site 577650009154 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 577650009155 amphipathic channel; other site 577650009156 Asn-Pro-Ala signature motifs; other site 577650009157 endonuclease IV; Provisional; Region: PRK01060 577650009158 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 577650009159 AP (apurinic/apyrimidinic) site pocket; other site 577650009160 DNA interaction; other site 577650009161 Metal-binding active site; metal-binding site 577650009162 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 577650009163 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 577650009164 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 577650009165 Zn2+ binding site [ion binding]; other site 577650009166 Mg2+ binding site [ion binding]; other site 577650009167 Peptidase family M48; Region: Peptidase_M48; cl12018 577650009168 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 577650009169 TPR motif; other site 577650009170 binding surface 577650009171 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 577650009172 Uncharacterized conserved protein [Function unknown]; Region: COG0327 577650009173 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 577650009174 Putative zinc ribbon domain; Region: DUF164; pfam02591 577650009175 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 577650009176 RNA/DNA hybrid binding site [nucleotide binding]; other site 577650009177 active site 577650009178 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 577650009179 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 577650009180 substrate binding site; other site 577650009181 dimer interface; other site 577650009182 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 577650009183 homotrimer interaction site [polypeptide binding]; other site 577650009184 zinc binding site [ion binding]; other site 577650009185 CDP-binding sites; other site 577650009186 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 577650009187 peptidase T-like protein; Region: PepT-like; TIGR01883 577650009188 metal binding site [ion binding]; metal-binding site 577650009189 putative dimer interface [polypeptide binding]; other site 577650009190 selenophosphate synthetase; Provisional; Region: PRK00943 577650009191 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 577650009192 dimerization interface [polypeptide binding]; other site 577650009193 putative ATP binding site [chemical binding]; other site 577650009194 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 577650009195 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 577650009196 active site 577650009197 tetramer interface [polypeptide binding]; other site 577650009198 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 577650009199 active site 577650009200 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 577650009201 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 577650009202 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 577650009203 cytochrome c nitrite reductase, pentaheme subunit; Region: cyt_nit_nrfB; TIGR03146 577650009204 cytochrome c nitrite reductase, pentaheme subunit; Region: cyt_nit_nrfB; TIGR03146 577650009205 Phospholipid methyltransferase; Region: PEMT; cl17370 577650009206 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 577650009207 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 577650009208 homodimer interface [polypeptide binding]; other site 577650009209 substrate-cofactor binding pocket; other site 577650009210 pyridoxal 5'-phosphate binding site [chemical binding]; other site 577650009211 catalytic residue [active] 577650009212 Vitamin K epoxide reductase (VKOR) family in bacteria; Region: VKOR_4; cd12921 577650009213 putative active site [active] 577650009214 redox center [active] 577650009215 lipoyl synthase; Provisional; Region: PRK05481 577650009216 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 577650009217 FeS/SAM binding site; other site 577650009218 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 577650009219 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 577650009220 tetramer interface [polypeptide binding]; other site 577650009221 pyridoxal 5'-phosphate binding site [chemical binding]; other site 577650009222 catalytic residue [active] 577650009223 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 577650009224 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 577650009225 tetramer interface [polypeptide binding]; other site 577650009226 pyridoxal 5'-phosphate binding site [chemical binding]; other site 577650009227 catalytic residue [active] 577650009228 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 577650009229 lipoyl attachment site [posttranslational modification]; other site 577650009230 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 577650009231 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 577650009232 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 577650009233 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 577650009234 putative DNA binding site [nucleotide binding]; other site 577650009235 putative Zn2+ binding site [ion binding]; other site 577650009236 AsnC family; Region: AsnC_trans_reg; pfam01037 577650009237 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 577650009238 dimer interface [polypeptide binding]; other site 577650009239 catalytic triad [active] 577650009240 peroxidatic and resolving cysteines [active] 577650009241 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 577650009242 metal binding site 2 [ion binding]; metal-binding site 577650009243 putative DNA binding helix; other site 577650009244 metal binding site 1 [ion binding]; metal-binding site 577650009245 dimer interface [polypeptide binding]; other site 577650009246 structural Zn2+ binding site [ion binding]; other site 577650009247 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 577650009248 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 577650009249 AAA domain; Region: AAA_30; pfam13604 577650009250 Family description; Region: UvrD_C_2; pfam13538 577650009251 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 577650009252 Family description; Region: UvrD_C_2; pfam13538 577650009253 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 577650009254 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 577650009255 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 577650009256 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 577650009257 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 577650009258 putative active site [active] 577650009259 heme pocket [chemical binding]; other site 577650009260 histidine kinase; Provisional; Region: PRK13557 577650009261 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 577650009262 putative active site [active] 577650009263 heme pocket [chemical binding]; other site 577650009264 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 577650009265 dimer interface [polypeptide binding]; other site 577650009266 phosphorylation site [posttranslational modification] 577650009267 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 577650009268 ATP binding site [chemical binding]; other site 577650009269 Mg2+ binding site [ion binding]; other site 577650009270 G-X-G motif; other site 577650009271 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 577650009272 active site 577650009273 phosphorylation site [posttranslational modification] 577650009274 intermolecular recognition site; other site 577650009275 dimerization interface [polypeptide binding]; other site 577650009276 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 577650009277 substrate binding site [chemical binding]; other site 577650009278 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 577650009279 ATP binding site [chemical binding]; other site 577650009280 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 577650009281 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 577650009282 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 577650009283 active site 577650009284 NAD binding site [chemical binding]; other site 577650009285 metal binding site [ion binding]; metal-binding site 577650009286 NMT1/THI5 like; Region: NMT1; pfam09084 577650009287 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 577650009288 substrate binding pocket [chemical binding]; other site 577650009289 membrane-bound complex binding site; other site 577650009290 PAS domain S-box; Region: sensory_box; TIGR00229 577650009291 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 577650009292 putative active site [active] 577650009293 heme pocket [chemical binding]; other site 577650009294 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 577650009295 PAS domain; Region: PAS_9; pfam13426 577650009296 putative active site [active] 577650009297 heme pocket [chemical binding]; other site 577650009298 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 577650009299 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 577650009300 metal binding site [ion binding]; metal-binding site 577650009301 active site 577650009302 I-site; other site 577650009303 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 577650009304 Cache domain; Region: Cache_1; pfam02743 577650009305 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 577650009306 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 577650009307 dimerization interface [polypeptide binding]; other site 577650009308 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 577650009309 dimer interface [polypeptide binding]; other site 577650009310 putative CheW interface [polypeptide binding]; other site 577650009311 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 577650009312 xanthine dehydrogenase subunit XdhA; Provisional; Region: PRK09970 577650009313 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 577650009314 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 577650009315 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 577650009316 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 577650009317 catalytic loop [active] 577650009318 iron binding site [ion binding]; other site 577650009319 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 577650009320 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 577650009321 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 577650009322 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 577650009323 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 577650009324 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 577650009325 ABC transporter; Region: ABC_tran_2; pfam12848 577650009326 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 577650009327 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 577650009328 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 577650009329 FeS/SAM binding site; other site 577650009330 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 577650009331 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 577650009332 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 577650009333 TrkA-N domain; Region: TrkA_N; pfam02254 577650009334 TrkA-C domain; Region: TrkA_C; pfam02080 577650009335 TrkA-N domain; Region: TrkA_N; pfam02254 577650009336 TrkA-C domain; Region: TrkA_C; pfam02080 577650009337 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 577650009338 putative active site [active] 577650009339 putative CoA binding site [chemical binding]; other site 577650009340 nudix motif; other site 577650009341 metal binding site [ion binding]; metal-binding site 577650009342 malate dehydrogenase; Provisional; Region: PRK05442 577650009343 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 577650009344 NAD(P) binding site [chemical binding]; other site 577650009345 dimer interface [polypeptide binding]; other site 577650009346 malate binding site [chemical binding]; other site 577650009347 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 577650009348 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 577650009349 pseudouridine synthase; Region: TIGR00093 577650009350 active site 577650009351 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 577650009352 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 577650009353 EamA-like transporter family; Region: EamA; pfam00892 577650009354 EamA-like transporter family; Region: EamA; pfam00892 577650009355 Transposase IS200 like; Region: Y1_Tnp; pfam01797 577650009356 DNA polymerase III, delta subunit [DNA replication, recombination, and repair]; Region: HolA; COG1466 577650009357 Uncharacterized conserved protein [Function unknown]; Region: COG2127 577650009358 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 577650009359 Clp amino terminal domain; Region: Clp_N; pfam02861 577650009360 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 577650009361 Walker A motif; other site 577650009362 ATP binding site [chemical binding]; other site 577650009363 Walker B motif; other site 577650009364 arginine finger; other site 577650009365 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 577650009366 Walker A motif; other site 577650009367 ATP binding site [chemical binding]; other site 577650009368 Walker B motif; other site 577650009369 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 577650009370 Protein of unknown function (DUF3373); Region: DUF3373; pfam11853 577650009371 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 577650009372 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 577650009373 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 577650009374 putative catalytic site [active] 577650009375 putative metal binding site [ion binding]; other site 577650009376 putative phosphate binding site [ion binding]; other site 577650009377 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 577650009378 active site 577650009379 NTP binding site [chemical binding]; other site 577650009380 metal binding triad [ion binding]; metal-binding site 577650009381 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 577650009382 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 577650009383 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 577650009384 FMN binding site [chemical binding]; other site 577650009385 substrate binding site [chemical binding]; other site 577650009386 putative catalytic residue [active] 577650009387 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 577650009388 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 577650009389 dimer interface [polypeptide binding]; other site 577650009390 motif 1; other site 577650009391 active site 577650009392 motif 2; other site 577650009393 motif 3; other site 577650009394 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 577650009395 anticodon binding site; other site 577650009396 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 577650009397 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 577650009398 dimer interface [polypeptide binding]; other site 577650009399 anticodon binding site; other site 577650009400 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 577650009401 homodimer interface [polypeptide binding]; other site 577650009402 motif 1; other site 577650009403 active site 577650009404 motif 2; other site 577650009405 GAD domain; Region: GAD; pfam02938 577650009406 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 577650009407 motif 3; other site 577650009408 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 577650009409 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 577650009410 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 577650009411 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 577650009412 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 577650009413 GTP binding site; other site 577650009414 glutamate dehydrogenase; Provisional; Region: PRK09414 577650009415 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 577650009416 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 577650009417 NAD(P) binding site [chemical binding]; other site 577650009418 Menaquinone biosynthesis; Region: VitK2_biosynth; cl17475 577650009419 futalosine nucleosidase; Region: fut_nucase; TIGR03664 577650009420 Queuosine biosynthesis protein; Region: Queuosine_synth; pfam02547 577650009421 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 577650009422 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 577650009423 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 577650009424 glutamate racemase; Provisional; Region: PRK00865 577650009425 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 577650009426 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 577650009427 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 577650009428 active site 577650009429 metal binding site [ion binding]; metal-binding site 577650009430 homotetramer interface [polypeptide binding]; other site 577650009431 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 577650009432 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 577650009433 RNA binding site [nucleotide binding]; other site 577650009434 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 577650009435 RNA binding site [nucleotide binding]; other site 577650009436 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 577650009437 RNA binding site [nucleotide binding]; other site 577650009438 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 577650009439 RNA binding site [nucleotide binding]; other site 577650009440 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 577650009441 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 577650009442 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 577650009443 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 577650009444 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 577650009445 catalytic site [active] 577650009446 G-X2-G-X-G-K; other site 577650009447 Domain of unknown function (DUF370); Region: DUF370; cl00898 577650009448 hypothetical protein; Provisional; Region: PRK11820 577650009449 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 577650009450 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 577650009451 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 577650009452 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 577650009453 putative ribose interaction site [chemical binding]; other site 577650009454 putative ADP binding site [chemical binding]; other site 577650009455 periplasmic chaperone; Provisional; Region: PRK10780 577650009456 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 577650009457 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 577650009458 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 577650009459 ligand binding site [chemical binding]; other site 577650009460 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 577650009461 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 577650009462 Radical SAM superfamily; Region: Radical_SAM; pfam04055 577650009463 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 577650009464 FeS/SAM binding site; other site 577650009465 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 577650009466 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 577650009467 FMN binding site [chemical binding]; other site 577650009468 active site 577650009469 catalytic residues [active] 577650009470 substrate binding site [chemical binding]; other site 577650009471 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 577650009472 metal binding site 2 [ion binding]; metal-binding site 577650009473 putative DNA binding helix; other site 577650009474 metal binding site 1 [ion binding]; metal-binding site 577650009475 dimer interface [polypeptide binding]; other site 577650009476 structural Zn2+ binding site [ion binding]; other site 577650009477 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 577650009478 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 577650009479 active site 577650009480 HIGH motif; other site 577650009481 dimer interface [polypeptide binding]; other site 577650009482 KMSKS motif; other site 577650009483 S4 RNA-binding domain; Region: S4; smart00363 577650009484 phosphodiesterase; Provisional; Region: PRK12704 577650009485 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 577650009486 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 577650009487 Zn2+ binding site [ion binding]; other site 577650009488 Mg2+ binding site [ion binding]; other site 577650009489 Archaeal/vacuolar-type H+-ATPase subunit I [Energy production and conversion]; Region: NtpI; COG1269 577650009490 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 577650009491 putative active site [active] 577650009492 nucleotide binding site [chemical binding]; other site 577650009493 nudix motif; other site 577650009494 putative metal binding site [ion binding]; other site 577650009495 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 577650009496 N-acetyl-D-glucosamine binding site [chemical binding]; other site 577650009497 catalytic residue [active] 577650009498 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; cl00399 577650009499 MoaE homodimer interface [polypeptide binding]; other site 577650009500 MoaD interaction [polypeptide binding]; other site 577650009501 active site residues [active] 577650009502 HDOD domain; Region: HDOD; pfam08668 577650009503 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 577650009504 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 577650009505 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 577650009506 dimer interface [polypeptide binding]; other site 577650009507 phosphorylation site [posttranslational modification] 577650009508 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 577650009509 ATP binding site [chemical binding]; other site 577650009510 Mg2+ binding site [ion binding]; other site 577650009511 G-X-G motif; other site 577650009512 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 577650009513 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 577650009514 active site 577650009515 phosphorylation site [posttranslational modification] 577650009516 intermolecular recognition site; other site 577650009517 dimerization interface [polypeptide binding]; other site 577650009518 Response regulator receiver domain; Region: Response_reg; pfam00072 577650009519 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 577650009520 active site 577650009521 phosphorylation site [posttranslational modification] 577650009522 intermolecular recognition site; other site 577650009523 dimerization interface [polypeptide binding]; other site 577650009524 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 577650009525 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 577650009526 ParB-like nuclease domain; Region: ParBc; pfam02195 577650009527 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 577650009528 putative MPT binding site; other site 577650009529 Uncharacterized conserved protein [Function unknown]; Region: COG2835 577650009530 phosphoenolpyruvate synthase; Validated; Region: PRK06464 577650009531 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 577650009532 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 577650009533 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 577650009534 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 577650009535 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 577650009536 active site 577650009537 substrate binding site [chemical binding]; other site 577650009538 metal binding site [ion binding]; metal-binding site 577650009539 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 577650009540 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 577650009541 trimerization site [polypeptide binding]; other site 577650009542 active site 577650009543 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 577650009544 NifU-like domain; Region: NifU; cl00484 577650009545 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 577650009546 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 577650009547 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 577650009548 catalytic residue [active] 577650009549 Thymidylate synthase complementing protein; Region: Thy1; cl03630 577650009550 Thymidylate synthase complementing protein; Region: Thy1; pfam02511 577650009551 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 577650009552 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 577650009553 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 577650009554 Walker A motif; other site 577650009555 ATP binding site [chemical binding]; other site 577650009556 Walker B motif; other site 577650009557 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 577650009558 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 577650009559 ligand binding site [chemical binding]; other site 577650009560 flexible hinge region; other site 577650009561 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 577650009562 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 577650009563 putative metal binding site; other site 577650009564 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 577650009565 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 577650009566 putative active site [active] 577650009567 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 577650009568 O-Antigen ligase; Region: Wzy_C; pfam04932 577650009569 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 577650009570 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 577650009571 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 577650009572 Walker A/P-loop; other site 577650009573 ATP binding site [chemical binding]; other site 577650009574 Q-loop/lid; other site 577650009575 ABC transporter signature motif; other site 577650009576 Walker B; other site 577650009577 D-loop; other site 577650009578 H-loop/switch region; other site 577650009579 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 577650009580 Peptidase family U32; Region: Peptidase_U32; pfam01136 577650009581 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 577650009582 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 577650009583 ATP binding site [chemical binding]; other site 577650009584 Mg2+ binding site [ion binding]; other site 577650009585 G-X-G motif; other site 577650009586 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 577650009587 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 577650009588 active site 577650009589 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 577650009590 Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]; Region: PurN; COG0299 577650009591 active site 577650009592 substrate binding site [chemical binding]; other site 577650009593 cosubstrate binding site; other site 577650009594 catalytic site [active] 577650009595 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 577650009596 purine monophosphate binding site [chemical binding]; other site 577650009597 dimer interface [polypeptide binding]; other site 577650009598 putative catalytic residues [active] 577650009599 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 577650009600 RNA binding surface [nucleotide binding]; other site 577650009601 Type I GTP cyclohydrolase folE2; Region: GCHY-1; cl00642 577650009602 succinic semialdehyde dehydrogenase; Region: PLN02278 577650009603 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 577650009604 tetramerization interface [polypeptide binding]; other site 577650009605 NAD(P) binding site [chemical binding]; other site 577650009606 catalytic residues [active] 577650009607 PilZ domain; Region: PilZ; pfam07238 577650009608 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 577650009609 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 577650009610 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 577650009611 cyclase homology domain; Region: CHD; cd07302 577650009612 nucleotidyl binding site; other site 577650009613 metal binding site [ion binding]; metal-binding site 577650009614 dimer interface [polypeptide binding]; other site 577650009615 recombination factor protein RarA; Reviewed; Region: PRK13342 577650009616 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 577650009617 Walker A motif; other site 577650009618 ATP binding site [chemical binding]; other site 577650009619 Walker B motif; other site 577650009620 arginine finger; other site 577650009621 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 577650009622 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 577650009623 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 577650009624 DHH family; Region: DHH; pfam01368 577650009625 DHHA2 domain; Region: DHHA2; pfam02833 577650009626 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 577650009627 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 577650009628 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 577650009629 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 577650009630 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 577650009631 Switch I; other site 577650009632 Switch II; other site 577650009633 septum formation inhibitor; Reviewed; Region: minC; PRK04804 577650009634 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 577650009635 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 577650009636 putative metalloenzyme radical SAM/SPASM domain maturase; Region: rSAM_Geo_metal; TIGR04311 577650009637 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 577650009638 FeS/SAM binding site; other site 577650009639 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 577650009640 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 577650009641 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 577650009642 dimerization interface [polypeptide binding]; other site 577650009643 putative DNA binding site [nucleotide binding]; other site 577650009644 putative Zn2+ binding site [ion binding]; other site 577650009645 Predicted permease; Region: DUF318; cl17795 577650009646 Predicted permease; Region: DUF318; cl17795 577650009647 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 577650009648 arsenical-resistance protein; Region: acr3; TIGR00832 577650009649 Response regulator receiver domain; Region: Response_reg; pfam00072 577650009650 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 577650009651 active site 577650009652 phosphorylation site [posttranslational modification] 577650009653 intermolecular recognition site; other site 577650009654 dimerization interface [polypeptide binding]; other site 577650009655 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 577650009656 Response regulator receiver domain; Region: Response_reg; pfam00072 577650009657 active site 577650009658 phosphorylation site [posttranslational modification] 577650009659 intermolecular recognition site; other site 577650009660 dimerization interface [polypeptide binding]; other site 577650009661 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 577650009662 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 577650009663 dimer interface [polypeptide binding]; other site 577650009664 phosphorylation site [posttranslational modification] 577650009665 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 577650009666 ATP binding site [chemical binding]; other site 577650009667 Mg2+ binding site [ion binding]; other site 577650009668 G-X-G motif; other site 577650009669 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 577650009670 Response regulator receiver domain; Region: Response_reg; pfam00072 577650009671 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 577650009672 active site 577650009673 phosphorylation site [posttranslational modification] 577650009674 intermolecular recognition site; other site 577650009675 dimerization interface [polypeptide binding]; other site 577650009676 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 577650009677 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 577650009678 active site 577650009679 phosphorylation site [posttranslational modification] 577650009680 intermolecular recognition site; other site 577650009681 dimerization interface [polypeptide binding]; other site 577650009682 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 577650009683 Walker A motif; other site 577650009684 ATP binding site [chemical binding]; other site 577650009685 Walker B motif; other site 577650009686 arginine finger; other site 577650009687 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 577650009688 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 577650009689 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 577650009690 dimer interface [polypeptide binding]; other site 577650009691 phosphorylation site [posttranslational modification] 577650009692 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 577650009693 ATP binding site [chemical binding]; other site 577650009694 Mg2+ binding site [ion binding]; other site 577650009695 G-X-G motif; other site 577650009696 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 577650009697 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 577650009698 S-adenosylmethionine binding site [chemical binding]; other site 577650009699 HAMP domain; Region: HAMP; pfam00672 577650009700 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 577650009701 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 577650009702 Walker A motif; other site 577650009703 ATP binding site [chemical binding]; other site 577650009704 Walker B motif; other site 577650009705 arginine finger; other site 577650009706 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 577650009707 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 577650009708 dimer interface [polypeptide binding]; other site 577650009709 phosphorylation site [posttranslational modification] 577650009710 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 577650009711 ATP binding site [chemical binding]; other site 577650009712 Mg2+ binding site [ion binding]; other site 577650009713 G-X-G motif; other site 577650009714 Response regulator receiver domain; Region: Response_reg; pfam00072 577650009715 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 577650009716 active site 577650009717 phosphorylation site [posttranslational modification] 577650009718 intermolecular recognition site; other site 577650009719 dimerization interface [polypeptide binding]; other site 577650009720 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 577650009721 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 577650009722 dimer interface [polypeptide binding]; other site 577650009723 phosphorylation site [posttranslational modification] 577650009724 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 577650009725 ATP binding site [chemical binding]; other site 577650009726 Mg2+ binding site [ion binding]; other site 577650009727 G-X-G motif; other site 577650009728 Response regulator receiver domain; Region: Response_reg; pfam00072 577650009729 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 577650009730 active site 577650009731 phosphorylation site [posttranslational modification] 577650009732 intermolecular recognition site; other site 577650009733 dimerization interface [polypeptide binding]; other site 577650009734 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 577650009735 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 577650009736 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 577650009737 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 577650009738 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 577650009739 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 577650009740 dimer interface [polypeptide binding]; other site 577650009741 phosphorylation site [posttranslational modification] 577650009742 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 577650009743 ATP binding site [chemical binding]; other site 577650009744 Mg2+ binding site [ion binding]; other site 577650009745 G-X-G motif; other site 577650009746 Response regulator receiver domain; Region: Response_reg; pfam00072 577650009747 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 577650009748 active site 577650009749 phosphorylation site [posttranslational modification] 577650009750 intermolecular recognition site; other site 577650009751 dimerization interface [polypeptide binding]; other site 577650009752 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 577650009753 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 577650009754 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 577650009755 Response regulator receiver domain; Region: Response_reg; pfam00072 577650009756 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 577650009757 active site 577650009758 phosphorylation site [posttranslational modification] 577650009759 intermolecular recognition site; other site 577650009760 dimerization interface [polypeptide binding]; other site 577650009761 putative hydrolase; Provisional; Region: PRK10985 577650009762 DsrE/DsrF-like family; Region: DrsE; pfam02635 577650009763 FOG: CBS domain [General function prediction only]; Region: COG0517 577650009764 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 577650009765 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 577650009766 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 577650009767 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 577650009768 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 577650009769 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 577650009770 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 577650009771 ATP-grasp domain; Region: ATP-grasp_4; cl17255 577650009772 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 577650009773 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 577650009774 carboxyltransferase (CT) interaction site; other site 577650009775 biotinylation site [posttranslational modification]; other site 577650009776 Flagellar protein (FlbD); Region: FlbD; pfam06289 577650009777 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 577650009778 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 577650009779 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 577650009780 potassium uptake protein; Region: kup; TIGR00794 577650009781 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 577650009782 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 577650009783 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 577650009784 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 577650009785 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 577650009786 active site 577650009787 dimer interface [polypeptide binding]; other site 577650009788 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 577650009789 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 577650009790 active site 577650009791 FMN binding site [chemical binding]; other site 577650009792 substrate binding site [chemical binding]; other site 577650009793 3Fe-4S cluster binding site [ion binding]; other site 577650009794 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 577650009795 domain interface; other site 577650009796 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 577650009797 FOG: CBS domain [General function prediction only]; Region: COG0517 577650009798 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 577650009799 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 577650009800 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 577650009801 N-terminal plug; other site 577650009802 ligand-binding site [chemical binding]; other site 577650009803 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 577650009804 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 577650009805 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 577650009806 dimerization interface [polypeptide binding]; other site 577650009807 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 577650009808 dimer interface [polypeptide binding]; other site 577650009809 phosphorylation site [posttranslational modification] 577650009810 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 577650009811 ATP binding site [chemical binding]; other site 577650009812 Mg2+ binding site [ion binding]; other site 577650009813 G-X-G motif; other site 577650009814 Response regulator receiver domain; Region: Response_reg; pfam00072 577650009815 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 577650009816 active site 577650009817 phosphorylation site [posttranslational modification] 577650009818 intermolecular recognition site; other site 577650009819 dimerization interface [polypeptide binding]; other site 577650009820 Response regulator receiver domain; Region: Response_reg; pfam00072 577650009821 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 577650009822 active site 577650009823 phosphorylation site [posttranslational modification] 577650009824 intermolecular recognition site; other site 577650009825 dimerization interface [polypeptide binding]; other site 577650009826 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 577650009827 nucleotide binding site/active site [active] 577650009828 HIT family signature motif; other site 577650009829 catalytic residue [active] 577650009830 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 577650009831 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 577650009832 ATP binding site [chemical binding]; other site 577650009833 putative Mg++ binding site [ion binding]; other site 577650009834 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 577650009835 nucleotide binding region [chemical binding]; other site 577650009836 ATP-binding site [chemical binding]; other site 577650009837 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 577650009838 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 577650009839 G1 box; other site 577650009840 putative GEF interaction site [polypeptide binding]; other site 577650009841 GTP/Mg2+ binding site [chemical binding]; other site 577650009842 Switch I region; other site 577650009843 G2 box; other site 577650009844 G3 box; other site 577650009845 Switch II region; other site 577650009846 G4 box; other site 577650009847 G5 box; other site 577650009848 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 577650009849 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 577650009850 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 577650009851 nudix motif; other site 577650009852 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; cl17836 577650009853 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 577650009854 active site 577650009855 catalytic triad [active] 577650009856 oxyanion hole [active] 577650009857 Type II secretory pathway, pullulanase PulA and related glycosidases [Carbohydrate transport and metabolism]; Region: PulA; COG1523 577650009858 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 577650009859 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 577650009860 active site 577650009861 catalytic site [active] 577650009862 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 577650009863 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 577650009864 Response regulator receiver domain; Region: Response_reg; pfam00072 577650009865 active site 577650009866 phosphorylation site [posttranslational modification] 577650009867 intermolecular recognition site; other site 577650009868 dimerization interface [polypeptide binding]; other site 577650009869 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 577650009870 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 577650009871 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 577650009872 AMP-binding enzyme; Region: AMP-binding; pfam00501 577650009873 acyl-activating enzyme (AAE) consensus motif; other site 577650009874 putative AMP binding site [chemical binding]; other site 577650009875 putative active site [active] 577650009876 putative CoA binding site [chemical binding]; other site 577650009877 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 577650009878 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_1; cd06158 577650009879 Peptidase family M50; Region: Peptidase_M50; pfam02163 577650009880 active site 577650009881 putative substrate binding region [chemical binding]; other site 577650009882 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 577650009883 DHH family; Region: DHH; pfam01368 577650009884 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 577650009885 FOG: CBS domain [General function prediction only]; Region: COG0517 577650009886 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with an upstream DHH domain which performs a phosphoesterase function and a downstream polyA polymerase domain. CBS is a small domain originally...; Region: CBS_pair_DHH_polyA_Pol_assoc; cd04595 577650009887 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 577650009888 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 577650009889 active site 577650009890 NTP binding site [chemical binding]; other site 577650009891 metal binding triad [ion binding]; metal-binding site 577650009892 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 577650009893 ribosome maturation protein RimP; Reviewed; Region: PRK00092 577650009894 Sm and related proteins; Region: Sm_like; cl00259 577650009895 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 577650009896 putative oligomer interface [polypeptide binding]; other site 577650009897 putative RNA binding site [nucleotide binding]; other site 577650009898 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 577650009899 NusA N-terminal domain; Region: NusA_N; pfam08529 577650009900 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 577650009901 RNA binding site [nucleotide binding]; other site 577650009902 homodimer interface [polypeptide binding]; other site 577650009903 NusA-like KH domain; Region: KH_5; pfam13184 577650009904 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 577650009905 G-X-X-G motif; other site 577650009906 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cl00189 577650009907 putative RNA binding cleft [nucleotide binding]; other site 577650009908 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 577650009909 translation initiation factor IF-2; Region: IF-2; TIGR00487 577650009910 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 577650009911 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 577650009912 G1 box; other site 577650009913 putative GEF interaction site [polypeptide binding]; other site 577650009914 GTP/Mg2+ binding site [chemical binding]; other site 577650009915 Switch I region; other site 577650009916 G2 box; other site 577650009917 G3 box; other site 577650009918 Switch II region; other site 577650009919 G4 box; other site 577650009920 G5 box; other site 577650009921 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 577650009922 Translation-initiation factor 2; Region: IF-2; pfam11987 577650009923 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 577650009924 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 577650009925 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 577650009926 DHH family; Region: DHH; pfam01368 577650009927 DHHA1 domain; Region: DHHA1; pfam02272 577650009928 tRNA pseudouridine(55) synthase; Region: TruB; TIGR00431 577650009929 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 577650009930 RNA binding site [nucleotide binding]; other site 577650009931 active site 577650009932 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 577650009933 16S/18S rRNA binding site [nucleotide binding]; other site 577650009934 S13e-L30e interaction site [polypeptide binding]; other site 577650009935 25S rRNA binding site [nucleotide binding]; other site 577650009936 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 577650009937 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 577650009938 RNase E interface [polypeptide binding]; other site 577650009939 trimer interface [polypeptide binding]; other site 577650009940 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 577650009941 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 577650009942 RNase E interface [polypeptide binding]; other site 577650009943 trimer interface [polypeptide binding]; other site 577650009944 active site 577650009945 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 577650009946 putative nucleic acid binding region [nucleotide binding]; other site 577650009947 G-X-X-G motif; other site 577650009948 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 577650009949 RNA binding site [nucleotide binding]; other site 577650009950 domain interface; other site 577650009951 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 577650009952 trimer interface [polypeptide binding]; other site 577650009953 active site 577650009954 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 577650009955 PAS domain; Region: PAS; smart00091 577650009956 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 577650009957 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 577650009958 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 577650009959 putative active site [active] 577650009960 heme pocket [chemical binding]; other site 577650009961 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 577650009962 dimer interface [polypeptide binding]; other site 577650009963 phosphorylation site [posttranslational modification] 577650009964 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 577650009965 ATP binding site [chemical binding]; other site 577650009966 Mg2+ binding site [ion binding]; other site 577650009967 G-X-G motif; other site 577650009968 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 577650009969 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 577650009970 active site 577650009971 DNA binding site [nucleotide binding] 577650009972 Int/Topo IB signature motif; other site 577650009973 Ribosomal protein S21; Region: Ribosomal_S21; pfam01165 577650009974 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 577650009975 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 577650009976 ATP-grasp domain; Region: ATP-grasp_4; cl17255 577650009977 seryl-tRNA synthetase; Provisional; Region: PRK05431 577650009978 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 577650009979 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 577650009980 dimer interface [polypeptide binding]; other site 577650009981 active site 577650009982 motif 1; other site 577650009983 motif 2; other site 577650009984 motif 3; other site 577650009985 Sec-independent protein translocase protein (TatC); Region: TatC; pfam00902 577650009986 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 577650009987 Septum formation initiator; Region: DivIC; pfam04977 577650009988 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 577650009989 Fe-S cluster binding site [ion binding]; other site 577650009990 active site 577650009991 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 577650009992 active site 577650009993 DNA primase; Validated; Region: dnaG; PRK05667 577650009994 CHC2 zinc finger; Region: zf-CHC2; pfam01807 577650009995 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 577650009996 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 577650009997 active site 577650009998 metal binding site [ion binding]; metal-binding site 577650009999 interdomain interaction site; other site 577650010000 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 577650010001 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 577650010002 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 577650010003 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 577650010004 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 577650010005 DNA binding residues [nucleotide binding] 577650010006 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 577650010007 DNA protecting protein DprA; Region: dprA; TIGR00732 577650010008 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 577650010009 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 577650010010 substrate binding site [chemical binding]; other site 577650010011 hexamer interface [polypeptide binding]; other site 577650010012 metal binding site [ion binding]; metal-binding site 577650010013 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14095 577650010014 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 577650010015 active site 577650010016 dimer interface [polypeptide binding]; other site 577650010017 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 577650010018 dimer interface [polypeptide binding]; other site 577650010019 active site 577650010020 sulfite reductase, dissimilatory-type alpha subunit; Region: dsrA; TIGR02064 577650010021 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 577650010022 sulfite reductase, dissimilatory-type beta subunit; Region: dsrB; TIGR02066 577650010023 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 577650010024 Dissimilatory sulfite reductase D (DsrD); Region: DsrD; pfam08679 577650010025 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 577650010026 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 577650010027 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 577650010028 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 577650010029 NADP binding site [chemical binding]; other site 577650010030 dimer interface [polypeptide binding]; other site 577650010031 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 577650010032 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 577650010033 putative active site [active] 577650010034 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 577650010035 Ubiquitin-conjugating enzyme E2, catalytic (UBCc) domain. This is part of the ubiquitin-mediated protein degradation pathway in which a thiol-ester linkage forms between a conserved cysteine and the C-terminus of ubiquitin and complexes with ubiquitin...; Region: UBCc; cl00154 577650010036 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 577650010037 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 577650010038 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 577650010039 motif II; other site 577650010040 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 577650010041 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 577650010042 Zn2+ binding site [ion binding]; other site 577650010043 Mg2+ binding site [ion binding]; other site 577650010044 Flagellin N-methylase; Region: FliB; pfam03692 577650010045 bifunctional preprotein translocase subunit SecD/SecF; Provisional; Region: PRK14726 577650010046 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 577650010047 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 577650010048 Protein export membrane protein; Region: SecD_SecF; pfam02355 577650010049 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 577650010050 AIR carboxylase; Region: AIRC; smart01001 577650010051 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 577650010052 AAA domain; Region: AAA_33; pfam13671 577650010053 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 577650010054 ATP-binding site [chemical binding]; other site 577650010055 Gluconate-6-phosphate binding site [chemical binding]; other site 577650010056 Tetratricopeptide repeat; Region: TPR_16; pfam13432 577650010057 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 577650010058 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 577650010059 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 577650010060 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 577650010061 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 577650010062 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 577650010063 catalytic residues [active] 577650010064 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 577650010065 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 577650010066 inhibitor-cofactor binding pocket; inhibition site 577650010067 pyridoxal 5'-phosphate binding site [chemical binding]; other site 577650010068 catalytic residue [active] 577650010069 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 577650010070 ATP synthase I chain; Region: ATP_synt_I; pfam03899 577650010071 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 577650010072 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 577650010073 F0F1 ATP synthase subunit C; Provisional; Region: PRK13469 577650010074 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 577650010075 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 577650010076 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 577650010077 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 577650010078 FeS/SAM binding site; other site 577650010079 TRAM domain; Region: TRAM; pfam01938 577650010080 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 577650010081 IHF - DNA interface [nucleotide binding]; other site 577650010082 IHF dimer interface [polypeptide binding]; other site 577650010083 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 577650010084 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 577650010085 RNA binding surface [nucleotide binding]; other site 577650010086 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 577650010087 active site 577650010088 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 577650010089 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 577650010090 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 577650010091 RmuC family; Region: RmuC; pfam02646 577650010092 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 577650010093 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 577650010094 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 577650010095 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 577650010096 HSP70 interaction site [polypeptide binding]; other site 577650010097 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 577650010098 substrate binding site [polypeptide binding]; other site 577650010099 dimer interface [polypeptide binding]; other site 577650010100 shikimate kinase; Reviewed; Region: aroK; PRK00131 577650010101 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 577650010102 ADP binding site [chemical binding]; other site 577650010103 magnesium binding site [ion binding]; other site 577650010104 putative shikimate binding site; other site 577650010105 glycogen synthase; Provisional; Region: glgA; PRK00654 577650010106 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 577650010107 ADP-binding pocket [chemical binding]; other site 577650010108 homodimer interface [polypeptide binding]; other site 577650010109 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 577650010110 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 577650010111 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 577650010112 chaperone protein DnaJ; Provisional; Region: PRK14290 577650010113 Domain of unknown function DUF77; Region: DUF77; pfam01910 577650010114 Response regulator receiver domain; Region: Response_reg; pfam00072 577650010115 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 577650010116 active site 577650010117 phosphorylation site [posttranslational modification] 577650010118 intermolecular recognition site; other site 577650010119 dimerization interface [polypeptide binding]; other site 577650010120 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 577650010121 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 577650010122 domain interfaces; other site 577650010123 active site 577650010124 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 577650010125 EamA-like transporter family; Region: EamA; pfam00892 577650010126 EamA-like transporter family; Region: EamA; pfam00892 577650010127 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 577650010128 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 577650010129 Walker A/P-loop; other site 577650010130 ATP binding site [chemical binding]; other site 577650010131 Q-loop/lid; other site 577650010132 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 577650010133 ABC transporter signature motif; other site 577650010134 Walker B; other site 577650010135 D-loop; other site 577650010136 ABC transporter; Region: ABC_tran_2; pfam12848 577650010137 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 577650010138 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 577650010139 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 577650010140 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 577650010141 serine O-acetyltransferase; Region: cysE; TIGR01172 577650010142 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 577650010143 trimer interface [polypeptide binding]; other site 577650010144 active site 577650010145 substrate binding site [chemical binding]; other site 577650010146 CoA binding site [chemical binding]; other site 577650010147 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 577650010148 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 577650010149 dimer interface [polypeptide binding]; other site 577650010150 pyridoxal 5'-phosphate binding site [chemical binding]; other site 577650010151 catalytic residue [active] 577650010152 MOSC domain; Region: MOSC; pfam03473 577650010153 Flagellin N-methylase; Region: FliB; cl00497 577650010154 Protein of unknown function (DUF1186); Region: DUF1186; pfam06685 577650010155 Response regulator receiver domain; Region: Response_reg; pfam00072 577650010156 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 577650010157 active site 577650010158 phosphorylation site [posttranslational modification] 577650010159 intermolecular recognition site; other site 577650010160 dimerization interface [polypeptide binding]; other site 577650010161 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 577650010162 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 577650010163 metal binding site [ion binding]; metal-binding site 577650010164 active site 577650010165 I-site; other site 577650010166 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 577650010167 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 577650010168 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 577650010169 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 577650010170 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 577650010171 active site 577650010172 substrate binding pocket [chemical binding]; other site 577650010173 dimer interface [polypeptide binding]; other site 577650010174 translation initiation factor Sui1; Validated; Region: PRK06824 577650010175 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 577650010176 putative rRNA binding site [nucleotide binding]; other site 577650010177 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 577650010178 CHASE domain; Region: CHASE; pfam03924 577650010179 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 577650010180 PAS domain; Region: PAS_9; pfam13426 577650010181 putative active site [active] 577650010182 heme pocket [chemical binding]; other site 577650010183 PAS fold; Region: PAS_4; pfam08448 577650010184 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 577650010185 putative active site [active] 577650010186 heme pocket [chemical binding]; other site 577650010187 PAS domain S-box; Region: sensory_box; TIGR00229 577650010188 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 577650010189 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 577650010190 ATP binding site [chemical binding]; other site 577650010191 Mg2+ binding site [ion binding]; other site 577650010192 G-X-G motif; other site 577650010193 Response regulator receiver domain; Region: Response_reg; pfam00072 577650010194 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 577650010195 active site 577650010196 phosphorylation site [posttranslational modification] 577650010197 intermolecular recognition site; other site 577650010198 dimerization interface [polypeptide binding]; other site 577650010199 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 577650010200 EamA-like transporter family; Region: EamA; pfam00892 577650010201 EamA-like transporter family; Region: EamA; pfam00892 577650010202 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 577650010203 histidine kinase; Provisional; Region: PRK13557 577650010204 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 577650010205 putative active site [active] 577650010206 heme pocket [chemical binding]; other site 577650010207 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 577650010208 dimer interface [polypeptide binding]; other site 577650010209 phosphorylation site [posttranslational modification] 577650010210 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 577650010211 ATP binding site [chemical binding]; other site 577650010212 Mg2+ binding site [ion binding]; other site 577650010213 G-X-G motif; other site 577650010214 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 577650010215 active site 577650010216 phosphorylation site [posttranslational modification] 577650010217 intermolecular recognition site; other site 577650010218 dimerization interface [polypeptide binding]; other site 577650010219 Predicted methyltransferases [General function prediction only]; Region: COG0313 577650010220 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 577650010221 putative SAM binding site [chemical binding]; other site 577650010222 putative homodimer interface [polypeptide binding]; other site 577650010223 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 577650010224 Peptidase family U32; Region: Peptidase_U32; pfam01136 577650010225 Collagenase; Region: DUF3656; pfam12392 577650010226 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 577650010227 nudix motif; other site 577650010228 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 577650010229 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 577650010230 dimer interface [polypeptide binding]; other site 577650010231 active site 577650010232 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 577650010233 malonic semialdehyde reductase; Provisional; Region: PRK10538 577650010234 putative NAD(P) binding site [chemical binding]; other site 577650010235 homodimer interface [polypeptide binding]; other site 577650010236 homotetramer interface [polypeptide binding]; other site 577650010237 active site 577650010238 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 577650010239 Ferritin-like domain; Region: Ferritin; pfam00210 577650010240 ferroxidase diiron center [ion binding]; other site 577650010241 Predicted amidohydrolase [General function prediction only]; Region: COG0388 577650010242 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 577650010243 active site 577650010244 catalytic triad [active] 577650010245 dimer interface [polypeptide binding]; other site 577650010246 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 577650010247 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 577650010248 active site 577650010249 nucleotide binding site [chemical binding]; other site 577650010250 HIGH motif; other site 577650010251 KMSKS motif; other site 577650010252 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 577650010253 metal-binding site [ion binding] 577650010254 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 577650010255 HlyD family secretion protein; Region: HlyD_3; pfam13437 577650010256 multidrug efflux protein; Reviewed; Region: PRK09579 577650010257 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 577650010258 Cupin domain; Region: Cupin_2; cl17218 577650010259 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 577650010260 active site 577650010261 SAM binding site [chemical binding]; other site 577650010262 homodimer interface [polypeptide binding]; other site 577650010263 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 577650010264 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 577650010265 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 577650010266 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 577650010267 active site 577650010268 SAM binding site [chemical binding]; other site 577650010269 homodimer interface [polypeptide binding]; other site 577650010270 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 577650010271 active site 577650010272 SAM binding site [chemical binding]; other site 577650010273 homodimer interface [polypeptide binding]; other site 577650010274 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 577650010275 putative homodimer interface [polypeptide binding]; other site 577650010276 active site 577650010277 SAM binding site [chemical binding]; other site 577650010278 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 577650010279 precorrin-6Y C5,15-methyltransferase (decarboxylating), CbiT subunit; Region: CbiT; TIGR02469 577650010280 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 577650010281 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 577650010282 Precorrin-8X methylmutase; Region: CbiC; pfam02570 577650010283 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 577650010284 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 577650010285 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 577650010286 catalytic triad [active] 577650010287 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 577650010288 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 577650010289 intersubunit interface [polypeptide binding]; other site 577650010290 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 577650010291 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 577650010292 Walker A/P-loop; other site 577650010293 ATP binding site [chemical binding]; other site 577650010294 Q-loop/lid; other site 577650010295 ABC transporter signature motif; other site 577650010296 Walker B; other site 577650010297 D-loop; other site 577650010298 H-loop/switch region; other site 577650010299 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 577650010300 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 577650010301 ABC-ATPase subunit interface; other site 577650010302 dimer interface [polypeptide binding]; other site 577650010303 putative PBP binding regions; other site 577650010304 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 577650010305 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 577650010306 active site 577650010307 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 577650010308 active site 577650010309 Helix-turn-helix domain; Region: HTH_17; pfam12728 577650010310 tyrosine decarboxylase; Region: PLN02880 577650010311 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 577650010312 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 577650010313 catalytic residue [active] 577650010314 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 577650010315 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 577650010316 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 577650010317 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 577650010318 active site 577650010319 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 577650010320 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 577650010321 dimer interface [polypeptide binding]; other site 577650010322 active site 577650010323 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 577650010324 catalytic residues [active] 577650010325 substrate binding site [chemical binding]; other site 577650010326 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 577650010327 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 577650010328 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 577650010329 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 577650010330 dimerization interface [polypeptide binding]; other site 577650010331 active site 577650010332 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 577650010333 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 577650010334 HIGH motif; other site 577650010335 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 577650010336 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 577650010337 active site 577650010338 KMSKS motif; other site 577650010339 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 577650010340 tRNA binding surface [nucleotide binding]; other site 577650010341 anticodon binding site; other site 577650010342 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 577650010343 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 577650010344 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 577650010345 Zn2+ binding site [ion binding]; other site 577650010346 Mg2+ binding site [ion binding]; other site 577650010347 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 577650010348 peptide chain release factor 2; Validated; Region: prfB; PRK00578 577650010349 This domain is found in peptide chain release factors; Region: PCRF; smart00937 577650010350 RF-1 domain; Region: RF-1; pfam00472 577650010351 apolipoprotein N-acyltransferase; Region: lnt; TIGR00546 577650010352 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 577650010353 putative active site [active] 577650010354 catalytic triad [active] 577650010355 putative dimer interface [polypeptide binding]; other site 577650010356 FOG: CBS domain [General function prediction only]; Region: COG0517 577650010357 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 577650010358 Transporter associated domain; Region: CorC_HlyC; smart01091 577650010359 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 577650010360 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 577650010361 Domain of unknown function (DUF4402); Region: DUF4402; pfam14352 577650010362 Domain of unknown function (DUF4402); Region: DUF4402; pfam14352 577650010363 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 577650010364 Sporulation related domain; Region: SPOR; pfam05036 577650010365 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 577650010366 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 577650010367 ligand binding site [chemical binding]; other site 577650010368 flexible hinge region; other site 577650010369 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 577650010370 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 577650010371 nitrogenase reductase; Reviewed; Region: nifH; PRK13235 577650010372 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 577650010373 Nucleotide-binding sites [chemical binding]; other site 577650010374 Walker A motif; other site 577650010375 Switch I region of nucleotide binding site; other site 577650010376 Fe4S4 binding sites [ion binding]; other site 577650010377 Switch II region of nucleotide binding site; other site 577650010378 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 577650010379 Nitrogen regulatory protein P-II; Region: P-II; smart00938 577650010380 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 577650010381 Nitrogen regulatory protein P-II; Region: P-II; smart00938 577650010382 nitrogenase alpha chain; Region: alt_nitrog_alph; TIGR01284 577650010383 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 577650010384 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 577650010385 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 577650010386 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 577650010387 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 577650010388 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 577650010389 dimer interface [polypeptide binding]; other site 577650010390 [2Fe-2S] cluster binding site [ion binding]; other site 577650010391 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 577650010392 Coenzyme A binding pocket [chemical binding]; other site 577650010393 Staphylococcal nuclease homologues; Region: SNc; smart00318 577650010394 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 577650010395 Catalytic site; other site 577650010396 PEP-CTERM motif; Region: VPEP; pfam07589 577650010397 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 577650010398 active site 577650010399 Int/Topo IB signature motif; other site 577650010400 DNA binding site [nucleotide binding] 577650010401 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 577650010402 S-adenosylmethionine binding site [chemical binding]; other site 577650010403 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 577650010404 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 577650010405 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 577650010406 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 577650010407 Walker A motif; other site 577650010408 ATP binding site [chemical binding]; other site 577650010409 Walker B motif; other site 577650010410 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 577650010411 Integrase core domain; Region: rve; pfam00665 577650010412 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 577650010413 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 577650010414 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 577650010415 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 577650010416 MPN+ (JAMM) motif; other site 577650010417 Zinc-binding site [ion binding]; other site 577650010418 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 577650010419 nucleotide binding region [chemical binding]; other site 577650010420 ATP-binding site [chemical binding]; other site 577650010421 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 577650010422 ATP binding site [chemical binding]; other site 577650010423 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 577650010424 S-adenosylmethionine binding site [chemical binding]; other site 577650010425 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 577650010426 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 577650010427 dimer interface [polypeptide binding]; other site 577650010428 ssDNA binding site [nucleotide binding]; other site 577650010429 tetramer (dimer of dimers) interface [polypeptide binding]; other site 577650010430 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 577650010431 membrane ATPase/protein kinase; Provisional; Region: PRK09435 577650010432 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 577650010433 Walker A; other site 577650010434 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 577650010435 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 577650010436 active site 577650010437 substrate binding site [chemical binding]; other site 577650010438 coenzyme B12 binding site [chemical binding]; other site 577650010439 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 577650010440 B12 binding site [chemical binding]; other site 577650010441 cobalt ligand [ion binding]; other site 577650010442 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Beta subunit-like subfamily; contains bacterial proteins similar to the beta subunit of MCMs from Propionbacterium shermanni and Streptomyces cinnamonensis, which are alpha/beta...; Region: MM_CoA_mutase_beta; cd03677 577650010443 heterodimer interface [polypeptide binding]; other site 577650010444 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 577650010445 substrate interaction site [chemical binding]; other site 577650010446 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 577650010447 B12 binding site [chemical binding]; other site 577650010448 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 577650010449 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 577650010450 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 577650010451 P-loop; other site 577650010452 Magnesium ion binding site [ion binding]; other site 577650010453 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 577650010454 Magnesium ion binding site [ion binding]; other site 577650010455 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 577650010456 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 577650010457 substrate binding pocket [chemical binding]; other site 577650010458 membrane-bound complex binding site; other site 577650010459 hinge residues; other site 577650010460 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 577650010461 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 577650010462 dimer interface [polypeptide binding]; other site 577650010463 conserved gate region; other site 577650010464 putative PBP binding loops; other site 577650010465 ABC-ATPase subunit interface; other site 577650010466 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 577650010467 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 577650010468 Walker A/P-loop; other site 577650010469 ATP binding site [chemical binding]; other site 577650010470 Q-loop/lid; other site 577650010471 ABC transporter signature motif; other site 577650010472 Walker B; other site 577650010473 D-loop; other site 577650010474 H-loop/switch region; other site 577650010475 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 577650010476 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 577650010477 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 577650010478 4Fe-4S binding domain; Region: Fer4_5; pfam12801 577650010479 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 577650010480 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 577650010481 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 577650010482 CobN/Magnesium Chelatase; Region: CobN-Mg_chel; pfam02514 577650010483 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 577650010484 Predicted amidohydrolase [General function prediction only]; Region: COG0388 577650010485 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 577650010486 active site 577650010487 catalytic triad [active] 577650010488 dimer interface [polypeptide binding]; other site 577650010489 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 577650010490 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 577650010491 FeS/SAM binding site; other site 577650010492 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 577650010493 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 577650010494 homodimer interface [polypeptide binding]; other site 577650010495 Walker A motif; other site 577650010496 ATP binding site [chemical binding]; other site 577650010497 hydroxycobalamin binding site [chemical binding]; other site 577650010498 Walker B motif; other site 577650010499 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 577650010500 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 577650010501 N-terminal plug; other site 577650010502 ligand-binding site [chemical binding]; other site 577650010503 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 577650010504 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 577650010505 N-terminal plug; other site 577650010506 ligand-binding site [chemical binding]; other site 577650010507 Adenosylcobinamide amidohydrolase; Region: CbiZ; pfam01955 577650010508 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 577650010509 ABC-2 type transporter; Region: ABC2_membrane; cl17235 577650010510 nodulation ABC transporter NodI; Provisional; Region: PRK13537 577650010511 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 577650010512 Walker A/P-loop; other site 577650010513 ATP binding site [chemical binding]; other site 577650010514 Q-loop/lid; other site 577650010515 ABC transporter signature motif; other site 577650010516 Walker B; other site 577650010517 D-loop; other site 577650010518 H-loop/switch region; other site 577650010519 Mg-protoporyphyrin IX chelatase; Region: chlI; CHL00081 577650010520 magnesium chelatase ATPase subunit I; Region: BchI-ChlI; TIGR02030 577650010521 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 577650010522 Walker A motif; other site 577650010523 ATP binding site [chemical binding]; other site 577650010524 Walker B motif; other site 577650010525 arginine finger; other site 577650010526 Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto). In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase is...; Region: vWA_Magnesium_chelatase; cd01451 577650010527 metal ion-dependent adhesion site (MIDAS); other site 577650010528 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 577650010529 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 577650010530 N-terminal plug; other site 577650010531 ligand-binding site [chemical binding]; other site 577650010532 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 577650010533 CobN/Magnesium Chelatase; Region: CobN-Mg_chel; pfam02514 577650010534 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 577650010535 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 577650010536 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 577650010537 Walker A/P-loop; other site 577650010538 ATP binding site [chemical binding]; other site 577650010539 Q-loop/lid; other site 577650010540 ABC transporter signature motif; other site 577650010541 Walker B; other site 577650010542 D-loop; other site 577650010543 H-loop/switch region; other site 577650010544 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 577650010545 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 577650010546 ABC-ATPase subunit interface; other site 577650010547 dimer interface [polypeptide binding]; other site 577650010548 putative PBP binding regions; other site 577650010549 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 577650010550 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 577650010551 intersubunit interface [polypeptide binding]; other site 577650010552 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 577650010553 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 577650010554 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_N; cd03412 577650010555 active site 577650010556 C-terminal domain interface [polypeptide binding]; other site 577650010557 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 577650010558 active site 577650010559 N-terminal domain interface [polypeptide binding]; other site 577650010560 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 577650010561 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 577650010562 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 577650010563 Protein of unknown function (DUF4019); Region: DUF4019; pfam13211 577650010564 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 577650010565 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 577650010566 intersubunit interface [polypeptide binding]; other site 577650010567 Adenosylcobinamide amidohydrolase; Region: CbiZ; pfam01955 577650010568 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 577650010569 CobN/Magnesium Chelatase; Region: CobN-Mg_chel; pfam02514 577650010570 Predicted transporter (DUF2162); Region: DUF2162; cl01990 577650010571 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 577650010572 Uncharacterized conserved protein (DUF2149); Region: DUF2149; pfam09919 577650010573 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 577650010574 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 577650010575 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 577650010576 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 577650010577 NADP binding site [chemical binding]; other site 577650010578 homopentamer interface [polypeptide binding]; other site 577650010579 substrate binding site [chemical binding]; other site 577650010580 active site 577650010581 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 577650010582 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 577650010583 Walker A motif; other site 577650010584 ATP binding site [chemical binding]; other site 577650010585 Walker B motif; other site 577650010586 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 577650010587 Transposase; Region: HTH_Tnp_1; cl17663 577650010588 putative transposase OrfB; Reviewed; Region: PHA02517 577650010589 Integrase core domain; Region: rve; pfam00665 577650010590 Integrase core domain; Region: rve_3; pfam13683 577650010591 Restriction endonuclease [Defense mechanisms]; Region: Mrr; COG1715 577650010592 Mrr N-terminal domain; Region: Mrr_N; pfam14338 577650010593 Restriction endonuclease; Region: Mrr_cat; pfam04471 577650010594 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 577650010595 IHF dimer interface [polypeptide binding]; other site 577650010596 IHF - DNA interface [nucleotide binding]; other site 577650010597 Flavodoxin domain; Region: Flavodoxin_5; cl17428 577650010598 4Fe-4S binding domain; Region: Fer4; pfam00037 577650010599 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 577650010600 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 577650010601 Uncharacterized protein conserved in bacteria (DUF2186); Region: DUF2186; pfam09952 577650010602 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 577650010603 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 577650010604 Preprotein translocase SecG subunit; Region: SecG; pfam03840 577650010605 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 577650010606 triosephosphate isomerase; Provisional; Region: PRK14567 577650010607 substrate binding site [chemical binding]; other site 577650010608 dimer interface [polypeptide binding]; other site 577650010609 catalytic triad [active] 577650010610 Phosphoglycerate kinase; Region: PGK; pfam00162 577650010611 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 577650010612 substrate binding site [chemical binding]; other site 577650010613 hinge regions; other site 577650010614 ADP binding site [chemical binding]; other site 577650010615 catalytic site [active] 577650010616 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 577650010617 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 577650010618 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 577650010619 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 577650010620 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 577650010621 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 577650010622 Ligand Binding Site [chemical binding]; other site 577650010623 dihydroorotase; Validated; Region: pyrC; PRK09357 577650010624 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 577650010625 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 577650010626 active site 577650010627 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 577650010628 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 577650010629 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 577650010630 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 577650010631 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 577650010632 Catalytic site [active] 577650010633 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 577650010634 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 577650010635 active site 577650010636 metal binding site [ion binding]; metal-binding site 577650010637 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 577650010638 preprotein translocase subunit SecB; Validated; Region: PRK05751 577650010639 SecA binding site; other site 577650010640 Preprotein binding site; other site 577650010641 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 577650010642 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 577650010643 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 577650010644 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 577650010645 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 577650010646 dimer interface [polypeptide binding]; other site 577650010647 motif 1; other site 577650010648 active site 577650010649 motif 2; other site 577650010650 motif 3; other site 577650010651 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 577650010652 DNA-binding site [nucleotide binding]; DNA binding site 577650010653 RNA-binding motif; other site 577650010654 Major Facilitator Superfamily; Region: MFS_1; pfam07690 577650010655 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 577650010656 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 577650010657 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 577650010658 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 577650010659 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 577650010660 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 577650010661 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 577650010662 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 577650010663 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 577650010664 pyridoxal 5'-phosphate binding site [chemical binding]; other site 577650010665 homodimer interface [polypeptide binding]; other site 577650010666 catalytic residue [active] 577650010667 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 577650010668 benzoate-CoA ligase family; Region: benz_CoA_lig; TIGR02262 577650010669 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 577650010670 acyl-activating enzyme (AAE) consensus motif; other site 577650010671 AMP binding site [chemical binding]; other site 577650010672 active site 577650010673 CoA binding site [chemical binding]; other site 577650010674 Cupin domain; Region: Cupin_2; pfam07883 577650010675 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 577650010676 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 577650010677 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 577650010678 anti sigma factor interaction site; other site 577650010679 regulatory phosphorylation site [posttranslational modification]; other site 577650010680 Cache domain; Region: Cache_1; pfam02743 577650010681 HAMP domain; Region: HAMP; pfam00672 577650010682 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 577650010683 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 577650010684 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 577650010685 NMT1/THI5 like; Region: NMT1; pfam09084 577650010686 substrate binding pocket [chemical binding]; other site 577650010687 membrane-bound complex binding site; other site 577650010688 hinge residues; other site 577650010689 3D domain; Region: 3D; cl01439 577650010690 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 577650010691 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 577650010692 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 577650010693 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 577650010694 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 577650010695 intersubunit interface [polypeptide binding]; other site 577650010696 Protein of unknown function (DUF721); Region: DUF721; pfam05258 577650010697 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 577650010698 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 577650010699 dimer interface [polypeptide binding]; other site 577650010700 pyridoxal 5'-phosphate binding site [chemical binding]; other site 577650010701 catalytic residue [active] 577650010702 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 577650010703 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 577650010704 active site 577650010705 HIGH motif; other site 577650010706 nucleotide binding site [chemical binding]; other site 577650010707 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 577650010708 KMSKS motif; other site 577650010709 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 577650010710 tRNA binding surface [nucleotide binding]; other site 577650010711 anticodon binding site; other site 577650010712 Bacterial sugar transferase; Region: Bac_transf; pfam02397 577650010713 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 577650010714 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 577650010715 putative NAD(P) binding site [chemical binding]; other site 577650010716 active site 577650010717 putative substrate binding site [chemical binding]; other site 577650010718 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 577650010719 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 577650010720 putative ADP-binding pocket [chemical binding]; other site 577650010721 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 577650010722 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 577650010723 putative ADP-binding pocket [chemical binding]; other site 577650010724 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 577650010725 oligomerization interface [polypeptide binding]; other site 577650010726 active site 577650010727 metal binding site [ion binding]; metal-binding site 577650010728 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 577650010729 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 577650010730 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 577650010731 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 577650010732 PAS domain; Region: PAS_9; pfam13426 577650010733 putative active site [active] 577650010734 heme pocket [chemical binding]; other site 577650010735 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 577650010736 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 577650010737 Walker A motif; other site 577650010738 ATP binding site [chemical binding]; other site 577650010739 Walker B motif; other site 577650010740 arginine finger; other site 577650010741 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 577650010742 Uncharacterized ACR, YagE family COG1723; Region: DUF155; cl00751 577650010743 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 577650010744 TIGR01777 family protein; Region: yfcH 577650010745 NAD(P) binding site [chemical binding]; other site 577650010746 active site 577650010747 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_3; cd07820 577650010748 putative hydrophobic ligand binding site [chemical binding]; other site 577650010749 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 577650010750 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 577650010751 NAD(P) binding site [chemical binding]; other site 577650010752 active site 577650010753 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 577650010754 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 577650010755 substrate binding pocket [chemical binding]; other site 577650010756 membrane-bound complex binding site; other site 577650010757 hinge residues; other site 577650010758 NAD-dependent deacetylase; Provisional; Region: PRK00481 577650010759 SIR2 family 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-fam; cd01407 577650010760 NAD+ binding site [chemical binding]; other site 577650010761 substrate binding site [chemical binding]; other site 577650010762 Zn binding site [ion binding]; other site 577650010763 helicase 45; Provisional; Region: PTZ00424 577650010764 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 577650010765 ATP binding site [chemical binding]; other site 577650010766 Mg++ binding site [ion binding]; other site 577650010767 motif III; other site 577650010768 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 577650010769 nucleotide binding region [chemical binding]; other site 577650010770 ATP-binding site [chemical binding]; other site 577650010771 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 577650010772 RNA binding site [nucleotide binding]; other site 577650010773 hydrogenase 4 subunit B; Validated; Region: PRK06521 577650010774 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 577650010775 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 577650010776 NADH dehydrogenase; Region: NADHdh; cl00469 577650010777 Hydrogenase 4 membrane component (E) [Energy production and conversion]; Region: HyfE; cl17899 577650010778 hydrogenase 4 subunit F; Validated; Region: PRK06458 577650010779 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 577650010780 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 577650010781 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 577650010782 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 577650010783 formate hydrogenlyase complex iron-sulfur subunit; Provisional; Region: PRK12387 577650010784 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl17194 577650010785 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 577650010786 EAL domain; Region: EAL; pfam00563 577650010787 Protein of unknown function (DUF2397); Region: DUF2397; pfam09660 577650010788 HDOD domain; Region: HDOD; pfam08668 577650010789 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 577650010790 Zn2+ binding site [ion binding]; other site 577650010791 Mg2+ binding site [ion binding]; other site 577650010792 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 577650010793 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 577650010794 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 577650010795 murein L,D-transpeptidase; Provisional; Region: PRK10594 577650010796 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 577650010797 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 577650010798 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 577650010799 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 577650010800 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_N; cd03412 577650010801 active site 577650010802 C-terminal domain interface [polypeptide binding]; other site 577650010803 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 577650010804 active site 577650010805 N-terminal domain interface [polypeptide binding]; other site 577650010806 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 577650010807 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 577650010808 Secretin and TonB N terminus short domain; Region: STN; smart00965 577650010809 TPR repeat; Region: TPR_11; pfam13414 577650010810 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 577650010811 binding surface 577650010812 TPR motif; other site 577650010813 Pilus assembly protein, PilP; Region: PilP; pfam04351 577650010814 Pilus assembly protein, PilO; Region: PilO; pfam04350 577650010815 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 577650010816 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 577650010817 Competence protein A; Region: Competence_A; pfam11104 577650010818 Cell division protein FtsA; Region: FtsA; pfam14450 577650010819 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 577650010820 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 577650010821 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 577650010822 putative active site [active] 577650010823 putative substrate binding site [chemical binding]; other site 577650010824 putative cosubstrate binding site; other site 577650010825 catalytic site [active] 577650010826 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 577650010827 TPP-binding site [chemical binding]; other site 577650010828 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 577650010829 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 577650010830 PYR/PP interface [polypeptide binding]; other site 577650010831 dimer interface [polypeptide binding]; other site 577650010832 TPP binding site [chemical binding]; other site 577650010833 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 577650010834 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; cd01292 577650010835 active site 577650010836 Domain of unknown function (DUF309); Region: DUF309; pfam03745 577650010837 Domain of unknown function (DUF1737); Region: DUF1737; cl10503 577650010838 exonuclease subunit SbcD; Provisional; Region: PRK10966 577650010839 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 577650010840 active site 577650010841 metal binding site [ion binding]; metal-binding site 577650010842 DNA binding site [nucleotide binding] 577650010843 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 577650010844 exonuclease subunit SbcC; Provisional; Region: PRK10246 577650010845 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 577650010846 Walker A/P-loop; other site 577650010847 ATP binding site [chemical binding]; other site 577650010848 Q-loop/lid; other site 577650010849 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 577650010850 ABC transporter signature motif; other site 577650010851 Walker B; other site 577650010852 D-loop; other site 577650010853 H-loop/switch region; other site 577650010854 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 577650010855 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 577650010856 Walker A/P-loop; other site 577650010857 ATP binding site [chemical binding]; other site 577650010858 Q-loop/lid; other site 577650010859 ABC transporter signature motif; other site 577650010860 Walker B; other site 577650010861 D-loop; other site 577650010862 H-loop/switch region; other site 577650010863 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 577650010864 cobalt transport protein CbiM; Validated; Region: PRK06265 577650010865 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 577650010866 PDGLE domain; Region: PDGLE; pfam13190 577650010867 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 577650010868 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 577650010869 non-specific DNA binding site [nucleotide binding]; other site 577650010870 salt bridge; other site 577650010871 sequence-specific DNA binding site [nucleotide binding]; other site 577650010872 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 577650010873 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 577650010874 Ligand Binding Site [chemical binding]; other site 577650010875 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 577650010876 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 577650010877 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 577650010878 FeS/SAM binding site; other site 577650010879 competence damage-inducible protein A; Provisional; Region: PRK00549 577650010880 MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin; Region: MoCF_BD; cl00451 577650010881 MPT binding site; other site 577650010882 Competence-damaged protein; Region: CinA; pfam02464 577650010883 recombinase A; Provisional; Region: recA; PRK09354 577650010884 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 577650010885 hexamer interface [polypeptide binding]; other site 577650010886 Walker A motif; other site 577650010887 ATP binding site [chemical binding]; other site 577650010888 Walker B motif; other site 577650010889 hypothetical protein; Provisional; Region: PRK04334 577650010890 NIL domain; Region: NIL; pfam09383 577650010891 4Fe-4S binding domain; Region: Fer4; cl02805 577650010892 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 577650010893 4Fe-4S binding domain; Region: Fer4; cl02805 577650010894 Domain of unknown function DUF39; Region: DUF39; pfam01837 577650010895 putative methanogenesis marker 16 metalloprotein; Region: methan_mark_16; TIGR03287 577650010896 aconitate hydratase; Validated; Region: PRK09277 577650010897 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 577650010898 substrate binding site [chemical binding]; other site 577650010899 ligand binding site [chemical binding]; other site 577650010900 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 577650010901 substrate binding site [chemical binding]; other site 577650010902 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 577650010903 B12 binding site [chemical binding]; other site 577650010904 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 577650010905 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 577650010906 FeS/SAM binding site; other site 577650010907 Protein of unknown function (DUF4080); Region: DUF4080; pfam13311 577650010908 multidrug efflux protein; Reviewed; Region: PRK01766 577650010909 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 577650010910 cation binding site [ion binding]; other site 577650010911 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 577650010912 FAD binding site [chemical binding]; other site 577650010913 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 577650010914 HSP70 interaction site [polypeptide binding]; other site 577650010915 Glutaredoxin-like domain (DUF836); Region: DUF836; cl17650 577650010916 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 577650010917 Flagellin N-methylase; Region: FliB; cl00497 577650010918 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 577650010919 active site 577650010920 catalytic residues [active] 577650010921 metal binding site [ion binding]; metal-binding site 577650010922 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 577650010923 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 577650010924 putative active site [active] 577650010925 substrate binding site [chemical binding]; other site 577650010926 putative cosubstrate binding site; other site 577650010927 catalytic site [active] 577650010928 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 577650010929 substrate binding site [chemical binding]; other site 577650010930 hypothetical protein; Provisional; Region: PRK04194 577650010931 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 577650010932 tetramer interfaces [polypeptide binding]; other site 577650010933 binuclear metal-binding site [ion binding]; other site 577650010934 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_HprK; cl00270 577650010935 active site 577650010936 metal-binding site [ion binding] 577650010937 nucleotide-binding site [chemical binding]; other site 577650010938 pyruvate kinase; Provisional; Region: PRK05826 577650010939 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 577650010940 domain interfaces; other site 577650010941 active site 577650010942 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 577650010943 DNA repair protein RadA; Provisional; Region: PRK11823 577650010944 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 577650010945 Walker A motif/ATP binding site; other site 577650010946 ATP binding site [chemical binding]; other site 577650010947 Walker B motif; other site 577650010948 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 577650010949 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 577650010950 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 577650010951 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 577650010952 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 577650010953 conserved hypothetical protein, phage tail-like region; Region: TIGR02243 577650010954 conserved hypothetical protein, phage tail-like region; Region: TIGR02243 577650010955 Gene 25-like lysozyme; Region: GPW_gp25; pfam04965 577650010956 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 577650010957 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 577650010958 Phage Tail Protein X; Region: Phage_tail_X; cl02088 577650010959 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 577650010960 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 577650010961 Walker A motif; other site 577650010962 ATP binding site [chemical binding]; other site 577650010963 Walker B motif; other site 577650010964 arginine finger; other site 577650010965 Protein of unknown function (DUF4255); Region: DUF4255; pfam14065 577650010966 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; pfam06841 577650010967 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 577650010968 Phage tail sheath protein FI [General function prediction only]; Region: COG3497 577650010969 hypothetical protein; Provisional; Region: PRK01617 577650010970 SEC-C motif; Region: SEC-C; pfam02810 577650010971 ketol-acid reductoisomerase; Validated; Region: PRK05225 577650010972 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 577650010973 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 577650010974 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 577650010975 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 577650010976 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 577650010977 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 577650010978 dimerization interface [polypeptide binding]; other site 577650010979 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 577650010980 Ligand Binding Site [chemical binding]; other site 577650010981 Uncharacterized conserved protein [Function unknown]; Region: COG4715 577650010982 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 577650010983 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 577650010984 putative inner membrane protein; Provisional; Region: PRK11099 577650010985 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; cd00291 577650010986 CPxP motif; other site 577650010987 Beta-lactamase; Region: Beta-lactamase; pfam00144 577650010988 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 577650010989 DNA polymerase III subunit beta; Validated; Region: PRK05643 577650010990 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 577650010991 putative DNA binding surface [nucleotide binding]; other site 577650010992 dimer interface [polypeptide binding]; other site 577650010993 beta-clamp/clamp loader binding surface; other site 577650010994 beta-clamp/translesion DNA polymerase binding surface; other site 577650010995 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 577650010996 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 577650010997 Mg2+ binding site [ion binding]; other site 577650010998 G-X-G motif; other site 577650010999 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 577650011000 anchoring element; other site 577650011001 dimer interface [polypeptide binding]; other site 577650011002 ATP binding site [chemical binding]; other site 577650011003 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 577650011004 active site 577650011005 putative metal-binding site [ion binding]; other site 577650011006 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 577650011007 DNA gyrase subunit A; Validated; Region: PRK05560 577650011008 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 577650011009 CAP-like domain; other site 577650011010 active site 577650011011 primary dimer interface [polypeptide binding]; other site 577650011012 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 577650011013 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 577650011014 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 577650011015 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 577650011016 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 577650011017 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 577650011018 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 577650011019 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 577650011020 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 577650011021 Rubredoxin [Energy production and conversion]; Region: COG1773 577650011022 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 577650011023 iron binding site [ion binding]; other site 577650011024 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 577650011025 Rubrerythrin [Energy production and conversion]; Region: COG1592 577650011026 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 577650011027 binuclear metal center [ion binding]; other site 577650011028 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 577650011029 iron binding site [ion binding]; other site 577650011030 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 577650011031 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 577650011032 ATP-grasp domain; Region: ATP-grasp_4; cl17255 577650011033 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 577650011034 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 577650011035 ATP-grasp domain; Region: ATP-grasp_4; cl17255 577650011036 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 577650011037 IMP binding site; other site 577650011038 dimer interface [polypeptide binding]; other site 577650011039 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 577650011040 CoenzymeA binding site [chemical binding]; other site 577650011041 subunit interaction site [polypeptide binding]; other site 577650011042 PHB binding site; other site 577650011043 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 577650011044 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 577650011045 putative dimer interface [polypeptide binding]; other site 577650011046 active site pocket [active] 577650011047 putative cataytic base [active] 577650011048 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 577650011049 active site 577650011050 dimerization interface [polypeptide binding]; other site 577650011051 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases and ATP sulphurylases. The domain forms a apha/beta/apha fold which binds to Adenosine group; Region: Alpha_ANH_like; cd01986 577650011052 Ligand Binding Site [chemical binding]; other site 577650011053 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 577650011054 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 577650011055 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 577650011056 Walker A motif; other site 577650011057 ATP binding site [chemical binding]; other site 577650011058 Walker B motif; other site 577650011059 arginine finger; other site 577650011060 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 577650011061 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 577650011062 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 577650011063 active site 577650011064 phosphorylation site [posttranslational modification] 577650011065 intermolecular recognition site; other site 577650011066 dimerization interface [polypeptide binding]; other site 577650011067 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 577650011068 Zn2+ binding site [ion binding]; other site 577650011069 Mg2+ binding site [ion binding]; other site 577650011070 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 577650011071 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 577650011072 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 577650011073 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 577650011074 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 577650011075 pyridoxal 5'-phosphate binding site [chemical binding]; other site 577650011076 homodimer interface [polypeptide binding]; other site 577650011077 catalytic residue [active] 577650011078 cytidylate kinase; Provisional; Region: cmk; PRK00023 577650011079 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 577650011080 CMP-binding site; other site 577650011081 The sites determining sugar specificity; other site 577650011082 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional; Region: PRK11921 577650011083 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 577650011084 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 577650011085 DsrE/DsrF-like family; Region: DrsE; pfam02635 577650011086 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 577650011087 Rubredoxin; Region: Rubredoxin; pfam00301 577650011088 iron binding site [ion binding]; other site 577650011089 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 577650011090 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cd00974 577650011091 non-heme iron binding site [ion binding]; other site 577650011092 dimer interface [polypeptide binding]; other site 577650011093 Superoxide reductase-like (SORL) domain, class I; SORL-domains are present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals...; Region: SORL_Dfx_classI; cd03171 577650011094 non-heme iron binding site [ion binding]; other site 577650011095 dimer interface [polypeptide binding]; other site 577650011096 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 577650011097 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 577650011098 dimer interface [polypeptide binding]; other site 577650011099 decamer (pentamer of dimers) interface [polypeptide binding]; other site 577650011100 catalytic triad [active] 577650011101 peroxidatic and resolving cysteines [active] 577650011102 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 577650011103 metal binding site 2 [ion binding]; metal-binding site 577650011104 putative DNA binding helix; other site 577650011105 metal binding site 1 [ion binding]; metal-binding site 577650011106 dimer interface [polypeptide binding]; other site 577650011107 structural Zn2+ binding site [ion binding]; other site 577650011108 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 577650011109 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 577650011110 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 577650011111 ligand binding site [chemical binding]; other site 577650011112 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 577650011113 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 577650011114 substrate binding pocket [chemical binding]; other site 577650011115 membrane-bound complex binding site; other site 577650011116 hinge residues; other site 577650011117 Protein of unknown function (DUF3341); Region: DUF3341; pfam11821 577650011118 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 577650011119 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 577650011120 dimer interface [polypeptide binding]; other site 577650011121 conserved gate region; other site 577650011122 putative PBP binding loops; other site 577650011123 ABC-ATPase subunit interface; other site 577650011124 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 577650011125 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 577650011126 Walker A/P-loop; other site 577650011127 ATP binding site [chemical binding]; other site 577650011128 Q-loop/lid; other site 577650011129 ABC transporter signature motif; other site 577650011130 Walker B; other site 577650011131 D-loop; other site 577650011132 H-loop/switch region; other site 577650011133 CTP synthetase; Validated; Region: pyrG; PRK05380 577650011134 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 577650011135 Catalytic site [active] 577650011136 active site 577650011137 UTP binding site [chemical binding]; other site 577650011138 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 577650011139 active site 577650011140 putative oxyanion hole; other site 577650011141 catalytic triad [active] 577650011142 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 577650011143 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 577650011144 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 577650011145 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 577650011146 L,L-diaminopimelate aminotransferase; Validated; Region: PRK07590 577650011147 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 577650011148 pyridoxal 5'-phosphate binding site [chemical binding]; other site 577650011149 homodimer interface [polypeptide binding]; other site 577650011150 catalytic residue [active] 577650011151 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 577650011152 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 577650011153 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 577650011154 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 577650011155 hydrogenase 2 large subunit; Provisional; Region: PRK10467 577650011156 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 577650011157 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 577650011158 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 577650011159 putative substrate-binding site; other site 577650011160 nickel binding site [ion binding]; other site 577650011161 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 577650011162 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; Region: CobA_CobO_BtuR; cl17276 577650011163 cobyric acid synthase; Provisional; Region: PRK00784 577650011164 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 577650011165 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 577650011166 catalytic triad [active] 577650011167 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 577650011168 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 577650011169 pyridoxal 5'-phosphate binding site [chemical binding]; other site 577650011170 homodimer interface [polypeptide binding]; other site 577650011171 catalytic residue [active] 577650011172 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 577650011173 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 577650011174 dimerization interface [polypeptide binding]; other site 577650011175 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 577650011176 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 577650011177 dimer interface [polypeptide binding]; other site 577650011178 phosphorylation site [posttranslational modification] 577650011179 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 577650011180 ATP binding site [chemical binding]; other site 577650011181 Mg2+ binding site [ion binding]; other site 577650011182 G-X-G motif; other site 577650011183 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 577650011184 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 577650011185 active site 577650011186 phosphorylation site [posttranslational modification] 577650011187 intermolecular recognition site; other site 577650011188 dimerization interface [polypeptide binding]; other site 577650011189 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 577650011190 DNA binding site [nucleotide binding] 577650011191 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 577650011192 PhoU domain; Region: PhoU; pfam01895 577650011193 PhoU domain; Region: PhoU; pfam01895 577650011194 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 577650011195 Methyltransferase domain; Region: Methyltransf_31; pfam13847 577650011196 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 577650011197 photolyase PhrII; Region: phr2; TIGR00591 577650011198 DNA photolyase; Region: DNA_photolyase; pfam00875 577650011199 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 577650011200 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 577650011201 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 577650011202 protein binding site [polypeptide binding]; other site 577650011203 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 577650011204 CHASE domain; Region: CHASE; cl01369 577650011205 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 577650011206 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 577650011207 putative active site [active] 577650011208 heme pocket [chemical binding]; other site 577650011209 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 577650011210 PAS fold; Region: PAS_3; pfam08447 577650011211 putative active site [active] 577650011212 heme pocket [chemical binding]; other site 577650011213 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 577650011214 dimer interface [polypeptide binding]; other site 577650011215 phosphorylation site [posttranslational modification] 577650011216 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 577650011217 ATP binding site [chemical binding]; other site 577650011218 Mg2+ binding site [ion binding]; other site 577650011219 G-X-G motif; other site 577650011220 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 577650011221 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 577650011222 active site 577650011223 phosphorylation site [posttranslational modification] 577650011224 intermolecular recognition site; other site 577650011225 dimerization interface [polypeptide binding]; other site 577650011226 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 577650011227 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 577650011228 catalytic triad [active] 577650011229 Ketopantoate reductase [Coenzyme metabolism]; Region: ApbA; COG1893 577650011230 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 577650011231 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 577650011232 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 577650011233 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 577650011234 folate binding site [chemical binding]; other site 577650011235 NADP+ binding site [chemical binding]; other site 577650011236 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 577650011237 RNA methyltransferase, RsmE family; Region: TIGR00046 577650011238 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 577650011239 dimerization interface [polypeptide binding]; other site 577650011240 putative tRNAtyr binding site [nucleotide binding]; other site 577650011241 putative active site [active] 577650011242 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 577650011243 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 577650011244 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 577650011245 Peptidase M16C associated; Region: M16C_assoc; pfam08367 577650011246 Domain of unknown function (DUF1992); Region: DUF1992; pfam09350 577650011247 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 577650011248 L-aspartate oxidase; Provisional; Region: PRK06175 577650011249 L-aspartate oxidase; Provisional; Region: PRK09077 577650011250 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910