-- dump date 20140619_055055 -- class Genbank::misc_feature -- table misc_feature_note -- id note 880070000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 880070000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 880070000003 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 880070000004 Walker A motif; other site 880070000005 ATP binding site [chemical binding]; other site 880070000006 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 880070000007 Walker B motif; other site 880070000008 arginine finger; other site 880070000009 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 880070000010 DnaA box-binding interface [nucleotide binding]; other site 880070000011 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 880070000012 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 880070000013 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 880070000014 Cu(I) binding site [ion binding]; other site 880070000015 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 880070000016 Cytochrome c; Region: Cytochrom_C; pfam00034 880070000017 FtsX-like permease family; Region: FtsX; pfam02687 880070000018 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 880070000019 Walker A/P-loop; other site 880070000020 ATP binding site [chemical binding]; other site 880070000021 ABC transporter; Region: ABC_tran; pfam00005 880070000022 Q-loop/lid; other site 880070000023 ABC transporter signature motif; other site 880070000024 Walker B; other site 880070000025 D-loop; other site 880070000026 H-loop/switch region; other site 880070000027 Response regulator receiver domain; Region: Response_reg; pfam00072 880070000028 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 880070000029 active site 880070000030 phosphorylation site [posttranslational modification] 880070000031 intermolecular recognition site; other site 880070000032 dimerization interface [polypeptide binding]; other site 880070000033 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880070000034 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 880070000035 dimer interface [polypeptide binding]; other site 880070000036 phosphorylation site [posttranslational modification] 880070000037 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 880070000038 ATP binding site [chemical binding]; other site 880070000039 Mg2+ binding site [ion binding]; other site 880070000040 G-X-G motif; other site 880070000041 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 880070000042 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 880070000043 putative active site [active] 880070000044 heme pocket [chemical binding]; other site 880070000045 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 880070000046 dimer interface [polypeptide binding]; other site 880070000047 phosphorylation site [posttranslational modification] 880070000048 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 880070000049 ATP binding site [chemical binding]; other site 880070000050 Mg2+ binding site [ion binding]; other site 880070000051 G-X-G motif; other site 880070000052 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 880070000053 CoA binding domain; Region: CoA_binding; smart00881 880070000054 CoA-ligase; Region: Ligase_CoA; pfam00549 880070000055 Planctomycete cytochrome C; Region: PSCyt1; pfam07635 880070000056 Protein of unknown function (DUF1587); Region: PSD3; pfam07626 880070000057 Protein of unknown function (DUF1595); Region: PSD5; pfam07637 880070000058 Protein of unknown function (DUF1592); Region: PSD4; pfam07631 880070000059 Protein of unknown function (DUF1588); Region: PSCyt3; pfam07627 880070000060 Protein of unknown function (DUF1585); Region: PSD2; pfam07624 880070000061 Protein of unknown function (DUF1552); Region: HXXSHH; pfam07586 880070000062 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 880070000063 Planctomycete cytochrome C; Region: PSCyt1; pfam07635 880070000064 PhoPQ-activated pathogenicity-related protein; Region: PhoPQ_related; pfam10142 880070000065 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 880070000066 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 880070000067 Trp docking motif [polypeptide binding]; other site 880070000068 putative active site [active] 880070000069 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 880070000070 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 880070000071 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 880070000072 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 880070000073 catalytic core [active] 880070000074 short chain dehydrogenase; Provisional; Region: PRK06924 880070000075 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880070000076 NAD(P) binding site [chemical binding]; other site 880070000077 active site 880070000078 multidrug efflux protein; Reviewed; Region: PRK01766 880070000079 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 880070000080 cation binding site [ion binding]; other site 880070000081 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 880070000082 ADP-ribose binding site [chemical binding]; other site 880070000083 dimer interface [polypeptide binding]; other site 880070000084 active site 880070000085 nudix motif; other site 880070000086 metal binding site [ion binding]; metal-binding site 880070000087 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 880070000088 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 880070000089 putative DNA binding site [nucleotide binding]; other site 880070000090 putative Zn2+ binding site [ion binding]; other site 880070000091 AsnC family; Region: AsnC_trans_reg; pfam01037 880070000092 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880070000093 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 880070000094 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 880070000095 Protein of unknown function (DUF2723); Region: DUF2723; pfam11028 880070000096 Methyltransferase domain; Region: Methyltransf_23; pfam13489 880070000097 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 880070000098 S-adenosylmethionine binding site [chemical binding]; other site 880070000099 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 880070000100 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 880070000101 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 880070000102 RmuC family; Region: RmuC; pfam02646 880070000103 Neutral/alkaline non-lysosomal ceramidase; Region: Ceramidase_alk; cl04712 880070000104 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 880070000105 active site 880070000106 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 880070000107 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 880070000108 homotrimer interaction site [polypeptide binding]; other site 880070000109 putative active site [active] 880070000110 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 880070000111 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880070000112 NAD(P) binding site [chemical binding]; other site 880070000113 active site 880070000114 flagellin modification protein A; Provisional; Region: PRK09186 880070000115 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880070000116 NAD(P) binding site [chemical binding]; other site 880070000117 active site 880070000118 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 880070000119 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 880070000120 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 880070000121 active site 880070000122 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 880070000123 catalytic tetrad [active] 880070000124 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 880070000125 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 880070000126 FAD binding pocket [chemical binding]; other site 880070000127 conserved FAD binding motif [chemical binding]; other site 880070000128 phosphate binding motif [ion binding]; other site 880070000129 beta-alpha-beta structure motif; other site 880070000130 NAD binding pocket [chemical binding]; other site 880070000131 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 880070000132 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 880070000133 NADP binding site [chemical binding]; other site 880070000134 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 880070000135 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 880070000136 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 880070000137 inhibitor site; inhibition site 880070000138 active site 880070000139 dimer interface [polypeptide binding]; other site 880070000140 catalytic residue [active] 880070000141 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 880070000142 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 880070000143 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 880070000144 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 880070000145 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 880070000146 dimer interface [polypeptide binding]; other site 880070000147 active site 880070000148 heme binding site [chemical binding]; other site 880070000149 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 880070000150 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 880070000151 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 880070000152 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 880070000153 Penicillinase repressor; Region: Pencillinase_R; pfam03965 880070000154 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 880070000155 Protein of unknown function (DUF1761); Region: DUF1761; pfam08570 880070000156 Helix-turn-helix domain; Region: HTH_18; pfam12833 880070000157 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 880070000158 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 880070000159 non-specific DNA binding site [nucleotide binding]; other site 880070000160 salt bridge; other site 880070000161 sequence-specific DNA binding site [nucleotide binding]; other site 880070000162 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 880070000163 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 880070000164 active site 880070000165 catalytic triad [active] 880070000166 oxyanion hole [active] 880070000167 Cadherin repeat-like domain; Region: CA_like; cl15786 880070000168 Pectate lyase; Region: Pec_lyase_C; cl01593 880070000169 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 880070000170 Peptidase M15; Region: Peptidase_M15_3; cl01194 880070000171 Mu-like prophage I protein; Region: Mu-like_Pro; pfam10123 880070000172 Putative transcription regulator (DUF1323); Region: DUF1323; pfam07037 880070000173 Protein of unknown function (DUF1320); Region: DUF1320; cl01818 880070000174 Protein of unknown function (DUF935); Region: DUF935; pfam06074 880070000175 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 880070000176 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 880070000177 ASC-1 homology or ASCH domain, a small beta-barrel domain found in all three kingdoms of life. ASCH resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation; Region: ASCH; cl01020 880070000178 AAA domain; Region: AAA_25; pfam13481 880070000179 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 880070000180 Walker A motif; other site 880070000181 ATP binding site [chemical binding]; other site 880070000182 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 880070000183 AAA domain; Region: AAA_22; pfam13401 880070000184 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 880070000185 non-specific DNA binding site [nucleotide binding]; other site 880070000186 salt bridge; other site 880070000187 sequence-specific DNA binding site [nucleotide binding]; other site 880070000188 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 880070000189 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 880070000190 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 880070000191 Family description; Region: VCBS; pfam13517 880070000192 FG-GAP repeat; Region: FG-GAP; pfam01839 880070000193 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4299 880070000194 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 880070000195 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 880070000196 ligand binding site [chemical binding]; other site 880070000197 flexible hinge region; other site 880070000198 helix_turn_helix, cAMP Regulatory protein; Region: HTH_CRP; smart00419 880070000199 Pirin-related protein [General function prediction only]; Region: COG1741 880070000200 Pirin; Region: Pirin; pfam02678 880070000201 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 880070000202 Domain of unknown function (DUF4221); Region: DUF4221; pfam13970 880070000203 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 880070000204 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 880070000205 4Fe-4S binding domain; Region: Fer4; pfam00037 880070000206 4Fe-4S binding domain; Region: Fer4; pfam00037 880070000207 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 880070000208 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 880070000209 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 880070000210 dimer interface [polypeptide binding]; other site 880070000211 PYR/PP interface [polypeptide binding]; other site 880070000212 TPP binding site [chemical binding]; other site 880070000213 substrate binding site [chemical binding]; other site 880070000214 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Validated; Region: PRK05778 880070000215 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 880070000216 TPP-binding site [chemical binding]; other site 880070000217 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 880070000218 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 880070000219 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 880070000220 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 880070000221 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 880070000222 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 880070000223 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 880070000224 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 880070000225 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 880070000226 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 880070000227 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 880070000228 active site 880070000229 DNA binding site [nucleotide binding] 880070000230 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 880070000231 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 880070000232 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 880070000233 non-specific DNA binding site [nucleotide binding]; other site 880070000234 salt bridge; other site 880070000235 sequence-specific DNA binding site [nucleotide binding]; other site 880070000236 Predicted transcriptional regulator [Transcription]; Region: COG2932 880070000237 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 880070000238 Catalytic site [active] 880070000239 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 880070000240 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 880070000241 DNA binding site [nucleotide binding] 880070000242 active site 880070000243 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 880070000244 Coenzyme A binding pocket [chemical binding]; other site 880070000245 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 880070000246 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880070000247 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 880070000248 DNA binding residues [nucleotide binding] 880070000249 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 880070000250 active site 880070000251 catalytic residues [active] 880070000252 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 880070000253 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 880070000254 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 880070000255 ABC transporter; Region: ABC_tran_2; pfam12848 880070000256 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 880070000257 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09652 880070000258 GTP-binding protein YchF; Reviewed; Region: PRK09601 880070000259 YchF GTPase; Region: YchF; cd01900 880070000260 G1 box; other site 880070000261 GTP/Mg2+ binding site [chemical binding]; other site 880070000262 Switch I region; other site 880070000263 G2 box; other site 880070000264 Switch II region; other site 880070000265 G3 box; other site 880070000266 G4 box; other site 880070000267 G5 box; other site 880070000268 TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown. The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the...; Region: TGS_YchF_C; cd04867 880070000269 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 880070000270 Protein of unknown function (DUF3276); Region: DUF3276; pfam11680 880070000271 4Fe-4S binding domain; Region: Fer4; cl02805 880070000272 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 880070000273 NAD(P) binding site [chemical binding]; other site 880070000274 catalytic residues [active] 880070000275 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 880070000276 binding surface 880070000277 Tetratricopeptide repeat; Region: TPR_16; pfam13432 880070000278 TPR motif; other site 880070000279 TPR repeat; Region: TPR_11; pfam13414 880070000280 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 880070000281 binding surface 880070000282 TPR motif; other site 880070000283 TPR repeat; Region: TPR_11; pfam13414 880070000284 TPR repeat; Region: TPR_11; pfam13414 880070000285 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 880070000286 binding surface 880070000287 TPR motif; other site 880070000288 CsbD-like; Region: CsbD; pfam05532 880070000289 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 880070000290 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 880070000291 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 880070000292 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 880070000293 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 880070000294 inhibitor-cofactor binding pocket; inhibition site 880070000295 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880070000296 catalytic residue [active] 880070000297 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 880070000298 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 880070000299 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 880070000300 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 880070000301 Na(+)/iodide (NIS) and Na(+)/multivitamin (SMVT) cotransporters, and related proteins; solute binding domain; Region: SLC5sbd_NIS-like; cd10326 880070000302 Na binding site [ion binding]; other site 880070000303 Amidohydrolase; Region: Amidohydro_2; pfam04909 880070000304 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 880070000305 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 880070000306 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 880070000307 catalytic residue [active] 880070000308 DinB family; Region: DinB; cl17821 880070000309 DinB superfamily; Region: DinB_2; pfam12867 880070000310 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 880070000311 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 880070000312 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 880070000313 Right handed beta helix region; Region: Beta_helix; pfam13229 880070000314 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 880070000315 HEAT repeats; Region: HEAT_2; pfam13646 880070000316 HEAT repeats; Region: HEAT_2; pfam13646 880070000317 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 880070000318 Cytochrome c; Region: Cytochrom_C; pfam00034 880070000319 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070000320 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 880070000321 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 880070000322 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 880070000323 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 880070000324 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070000325 Sulfatase; Region: Sulfatase; pfam00884 880070000326 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 880070000327 Amidohydrolase; Region: Amidohydro_2; pfam04909 880070000328 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 880070000329 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 880070000330 inhibitor-cofactor binding pocket; inhibition site 880070000331 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880070000332 catalytic residue [active] 880070000333 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 880070000334 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 880070000335 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 880070000336 starch binding outer membrane protein SusD; Region: SusD; cd08977 880070000337 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070000338 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070000339 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070000340 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 880070000341 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 880070000342 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880070000343 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 880070000344 DNA binding residues [nucleotide binding] 880070000345 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070000346 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070000347 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070000348 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 880070000349 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 880070000350 starch binding outer membrane protein SusD; Region: SusD; cl17845 880070000351 SusD family; Region: SusD; pfam07980 880070000352 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 880070000353 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 880070000354 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 880070000355 Methane oxygenase PmoA; Region: PmoA; pfam14100 880070000356 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 880070000357 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; cl12060 880070000358 Neutral/alkaline non-lysosomal ceramidase; Region: Ceramidase_alk; cl04712 880070000359 Neutral/alkaline non-lysosomal ceramidase; Region: Ceramidase_alk; cl04712 880070000360 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like2; cd05667 880070000361 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 880070000362 metal binding site [ion binding]; metal-binding site 880070000363 putative dimer interface [polypeptide binding]; other site 880070000364 Cytochrome c; Region: Cytochrom_C; cl11414 880070000365 Cupin domain; Region: Cupin_2; pfam07883 880070000366 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 880070000367 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 880070000368 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 880070000369 BNR repeat-like domain; Region: BNR_2; pfam13088 880070000370 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cl17698 880070000371 Asp-box motif; other site 880070000372 BNR repeat-like domain; Region: BNR_2; pfam13088 880070000373 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070000374 Sulfatase; Region: Sulfatase; pfam00884 880070000375 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 880070000376 starch binding outer membrane protein SusD; Region: SusD; cd08977 880070000377 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070000378 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070000379 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 880070000380 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 880070000381 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 880070000382 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 880070000383 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880070000384 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 880070000385 DNA binding residues [nucleotide binding] 880070000386 Putative carbohydrate binding domain; Region: CHB_HEX; cl03918 880070000387 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 880070000388 Beta-N-acetylhexosaminidases of glycosyl hydrolase family 20 (GH20) catalyze the removal of beta-1,4-linked N-acetyl-D-hexosamine residues from the non-reducing ends of N-acetyl-beta-D-hexosaminides including N-acetylglucosides and N-acetylgalactosides; Region: GH20_hexosaminidase; cl02948 880070000389 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 880070000390 active site 880070000391 C-terminal Early set domain associated with the catalytic domain of chitobiase (also called N-acetylglucosaminidase); Region: E_set_Chitobiase_C; cd02847 880070000392 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4299 880070000393 thymidine kinase; Provisional; Region: PRK04296 880070000394 Recombination protein O N terminal; Region: RecO_N; pfam11967 880070000395 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecO; COG1381 880070000396 Recombination protein O C terminal; Region: RecO_C; pfam02565 880070000397 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 880070000398 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 880070000399 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 880070000400 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 880070000401 Chromate transporter; Region: Chromate_transp; pfam02417 880070000402 Chromate transporter; Region: Chromate_transp; pfam02417 880070000403 Penicillinase repressor; Region: Pencillinase_R; cl17580 880070000404 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 880070000405 apolar tunnel; other site 880070000406 heme binding site [chemical binding]; other site 880070000407 dimerization interface [polypeptide binding]; other site 880070000408 Rrf2 family protein; Region: rrf2_super; TIGR00738 880070000409 Transcriptional regulator; Region: Rrf2; pfam02082 880070000410 Transcriptional regulator; Region: Rrf2; cl17282 880070000411 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 880070000412 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 880070000413 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 880070000414 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 880070000415 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 880070000416 motif II; other site 880070000417 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 880070000418 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 880070000419 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 880070000420 putative uracil binding site [chemical binding]; other site 880070000421 putative active site [active] 880070000422 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 880070000423 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070000424 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 880070000425 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 880070000426 active site 880070000427 DNA binding site [nucleotide binding] 880070000428 Int/Topo IB signature motif; other site 880070000429 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 880070000430 active site 880070000431 substrate binding site [chemical binding]; other site 880070000432 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 880070000433 active site 880070000434 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 880070000435 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; cl02915 880070000436 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 880070000437 C2 domain; Region: C2; cl14603 880070000438 Pectate lyase; Region: Pec_lyase_C; cl01593 880070000439 Pectate lyase [Carbohydrate transport and metabolism]; Region: PelB; COG3866 880070000440 Alphavirus core protein; Region: Peptidase_S3; pfam00944 880070000441 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 880070000442 catalytic residues [active] 880070000443 Gas vesicle synthesis protein GvpL/GvpF; Region: GvpL_GvpF; pfam06386 880070000444 PLD-like domain; Region: PLDc_2; pfam13091 880070000445 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 880070000446 putative active site [active] 880070000447 catalytic site [active] 880070000448 AAA domain; Region: AAA_17; pfam13207 880070000449 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 880070000450 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 880070000451 MPN+ (JAMM) motif; other site 880070000452 Zinc-binding site [ion binding]; other site 880070000453 chitin-binding domain of Chi A1-like proteins; Region: ChiA1_BD; cd12214 880070000454 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 880070000455 oligomer interface [polypeptide binding]; other site 880070000456 active site residues [active] 880070000457 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 880070000458 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 880070000459 active site 880070000460 catalytic site [active] 880070000461 substrate binding site [chemical binding]; other site 880070000462 AAA domain; Region: AAA_18; pfam13238 880070000463 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 880070000464 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 880070000465 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 880070000466 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 880070000467 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 880070000468 cofactor binding site; other site 880070000469 DNA binding site [nucleotide binding] 880070000470 substrate interaction site [chemical binding]; other site 880070000471 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 880070000472 thymidylate synthase; Region: thym_sym; TIGR03284 880070000473 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 880070000474 dimerization interface [polypeptide binding]; other site 880070000475 active site 880070000476 DEAD-like helicases superfamily; Region: DEXDc; smart00487 880070000477 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 880070000478 DNA methylase; Region: N6_N4_Mtase; cl17433 880070000479 HD domain; Region: HD_3; cl17350 880070000480 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 880070000481 non-specific DNA binding site [nucleotide binding]; other site 880070000482 salt bridge; other site 880070000483 sequence-specific DNA binding site [nucleotide binding]; other site 880070000484 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 880070000485 active site 880070000486 metal binding site [ion binding]; metal-binding site 880070000487 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 880070000488 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 880070000489 active site 880070000490 metal binding site [ion binding]; metal-binding site 880070000491 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 880070000492 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 880070000493 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 880070000494 Walker A/P-loop; other site 880070000495 ATP binding site [chemical binding]; other site 880070000496 Q-loop/lid; other site 880070000497 ABC transporter signature motif; other site 880070000498 Walker B; other site 880070000499 D-loop; other site 880070000500 H-loop/switch region; other site 880070000501 NPCBM-associated, NEW3 domain of alpha-galactosidase; Region: NPCBM_assoc; pfam10633 880070000502 LytTr DNA-binding domain; Region: LytTR; smart00850 880070000503 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 880070000504 putative active site [active] 880070000505 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 880070000506 putative active site [active] 880070000507 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 880070000508 putative active site [active] 880070000509 Domain of unknown function (DUF4380); Region: DUF4380; pfam14315 880070000510 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 880070000511 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 880070000512 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 880070000513 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 880070000514 non-specific DNA binding site [nucleotide binding]; other site 880070000515 salt bridge; other site 880070000516 sequence-specific DNA binding site [nucleotide binding]; other site 880070000517 Cupin domain; Region: Cupin_2; pfam07883 880070000518 Hypothetical enzyme TM0436 resembles the zinc-dependent alcohol dehydrogenases (ADH); Region: MDR_TM0436_like; cd08231 880070000519 catalytic Zn binding site [ion binding]; other site 880070000520 putative phosphonate catabolism associated alcohol dehydrogenase; Region: HpnZ_proposed; TIGR03366 880070000521 structural Zn binding site [ion binding]; other site 880070000522 tetramer interface [polypeptide binding]; other site 880070000523 FAD dependent oxidoreductase TIGR03364; Region: HpnW_proposed 880070000524 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 880070000525 phosphonatase-like hydrolase; Region: PhnX-like; TIGR03351 880070000526 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 880070000527 motif II; other site 880070000528 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 880070000529 putative acyl-acceptor binding pocket; other site 880070000530 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 880070000531 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 880070000532 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 880070000533 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 880070000534 active site 880070000535 intersubunit interactions; other site 880070000536 catalytic residue [active] 880070000537 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 880070000538 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880070000539 Walker A/P-loop; other site 880070000540 ATP binding site [chemical binding]; other site 880070000541 Q-loop/lid; other site 880070000542 ABC transporter signature motif; other site 880070000543 Walker B; other site 880070000544 D-loop; other site 880070000545 H-loop/switch region; other site 880070000546 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 880070000547 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 880070000548 short chain dehydrogenase; Provisional; Region: PRK07677 880070000549 NAD(P) binding site [chemical binding]; other site 880070000550 substrate binding site [chemical binding]; other site 880070000551 homotetramer interface [polypeptide binding]; other site 880070000552 active site 880070000553 homodimer interface [polypeptide binding]; other site 880070000554 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 880070000555 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 880070000556 putative active site [active] 880070000557 Zn binding site [ion binding]; other site 880070000558 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 880070000559 FAD binding domain; Region: FAD_binding_4; pfam01565 880070000560 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 880070000561 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 880070000562 catalytic motif [active] 880070000563 Zn binding site [ion binding]; other site 880070000564 Response regulator receiver domain; Region: Response_reg; pfam00072 880070000565 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 880070000566 active site 880070000567 phosphorylation site [posttranslational modification] 880070000568 intermolecular recognition site; other site 880070000569 dimerization interface [polypeptide binding]; other site 880070000570 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 880070000571 POT family; Region: PTR2; cl17359 880070000572 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 880070000573 active site 880070000574 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 880070000575 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 880070000576 Nucleoside recognition; Region: Gate; pfam07670 880070000577 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 880070000578 Bifunctional nuclease; Region: DNase-RNase; pfam02577 880070000579 UvrB/uvrC motif; Region: UVR; pfam02151 880070000580 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 880070000581 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 880070000582 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 880070000583 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 880070000584 Ligand binding site [chemical binding]; other site 880070000585 Electron transfer flavoprotein domain; Region: ETF; pfam01012 880070000586 replicative DNA helicase; Region: DnaB; TIGR00665 880070000587 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 880070000588 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 880070000589 Walker A motif; other site 880070000590 ATP binding site [chemical binding]; other site 880070000591 Walker B motif; other site 880070000592 DNA binding loops [nucleotide binding] 880070000593 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 880070000594 active site 880070000595 catalytic site [active] 880070000596 substrate binding site [chemical binding]; other site 880070000597 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 880070000598 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 880070000599 Coenzyme A binding pocket [chemical binding]; other site 880070000600 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 880070000601 active site 880070000602 Response regulator receiver domain; Region: Response_reg; pfam00072 880070000603 phosphorylation site [posttranslational modification] 880070000604 intermolecular recognition site; other site 880070000605 dimerization interface [polypeptide binding]; other site 880070000606 PAS domain S-box; Region: sensory_box; TIGR00229 880070000607 PAS domain; Region: PAS; smart00091 880070000608 putative active site [active] 880070000609 heme pocket [chemical binding]; other site 880070000610 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 880070000611 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 880070000612 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 880070000613 active site 880070000614 phosphorylation site [posttranslational modification] 880070000615 intermolecular recognition site; other site 880070000616 dimerization interface [polypeptide binding]; other site 880070000617 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 880070000618 ATP binding site [chemical binding]; other site 880070000619 Mg2+ binding site [ion binding]; other site 880070000620 G-X-G motif; other site 880070000621 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 880070000622 putative catalytic site [active] 880070000623 putative metal binding site [ion binding]; other site 880070000624 putative phosphate binding site [ion binding]; other site 880070000625 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 880070000626 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 880070000627 FOG: CBS domain [General function prediction only]; Region: COG0517 880070000628 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 880070000629 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 880070000630 metal binding triad; other site 880070000631 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 880070000632 aconitate hydratase; Validated; Region: PRK09277 880070000633 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 880070000634 substrate binding site [chemical binding]; other site 880070000635 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 880070000636 ligand binding site [chemical binding]; other site 880070000637 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 880070000638 substrate binding site [chemical binding]; other site 880070000639 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 880070000640 mce related protein; Region: MCE; pfam02470 880070000641 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 880070000642 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 880070000643 Walker A/P-loop; other site 880070000644 ATP binding site [chemical binding]; other site 880070000645 Q-loop/lid; other site 880070000646 ABC transporter signature motif; other site 880070000647 Walker B; other site 880070000648 D-loop; other site 880070000649 H-loop/switch region; other site 880070000650 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 880070000651 Permease; Region: Permease; pfam02405 880070000652 Response regulator receiver domain; Region: Response_reg; pfam00072 880070000653 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 880070000654 active site 880070000655 phosphorylation site [posttranslational modification] 880070000656 intermolecular recognition site; other site 880070000657 dimerization interface [polypeptide binding]; other site 880070000658 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 880070000659 putative recombination protein RecB; Provisional; Region: PRK13909 880070000660 Uncharacterized conserved protein [Function unknown]; Region: COG1434 880070000661 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 880070000662 putative active site [active] 880070000663 FOG: CBS domain [General function prediction only]; Region: COG0517 880070000664 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_16; cd04629 880070000665 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 880070000666 Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked glycoproteins. This enzyme is an amidase located inside lysosomes. Mutation of this gene in humans causes a genetic disorder known as aspartylglycosaminuria (AGU)...; Region: Glycosylasparaginase; cd04513 880070000667 active site 880070000668 dimer interface [polypeptide binding]; other site 880070000669 catalytic nucleophile [active] 880070000670 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 880070000671 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 880070000672 nucleotide binding site [chemical binding]; other site 880070000673 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 880070000674 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 880070000675 active site 880070000676 glucosamine-6-phosphate deaminase-like protein; Validated; Region: PRK02122 880070000677 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 880070000678 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 880070000679 nucleotide binding site [chemical binding]; other site 880070000680 PAP2, haloperoxidase_like subfamily. Haloperoxidases catalyze the oxidation of halides such as bromide or chloride by hydrogen peroxide, which results in subsequent halogenation of organic substrates, or halide-assisted disproportionation of hydrogen...; Region: PAP2_haloperoxidase; cd03398 880070000681 active site 880070000682 Protein of unknown function (DUF1349); Region: DUF1349; pfam07081 880070000683 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 880070000684 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 880070000685 homodimer interface [polypeptide binding]; other site 880070000686 substrate-cofactor binding pocket; other site 880070000687 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880070000688 catalytic residue [active] 880070000689 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3055 880070000690 Kelch motif; Region: Kelch_1; pfam01344 880070000691 Kelch motif; Region: Kelch_1; pfam01344 880070000692 Kelch motif; Region: Kelch_1; pfam01344 880070000693 Galactose oxidase, central domain; Region: Kelch_3; cl02701 880070000694 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070000695 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 880070000696 threonine synthase; Validated; Region: PRK09225 880070000697 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 880070000698 catalytic residue [active] 880070000699 homoserine kinase; Provisional; Region: PRK01212 880070000700 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 880070000701 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 880070000702 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 880070000703 putative catalytic residues [active] 880070000704 putative nucleotide binding site [chemical binding]; other site 880070000705 putative aspartate binding site [chemical binding]; other site 880070000706 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 880070000707 dimer interface [polypeptide binding]; other site 880070000708 putative threonine allosteric regulatory site; other site 880070000709 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 880070000710 putative threonine allosteric regulatory site; other site 880070000711 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 880070000712 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 880070000713 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 880070000714 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 880070000715 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880070000716 NAD(P) binding site [chemical binding]; other site 880070000717 active site 880070000718 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 880070000719 Mechanosensitive ion channel; Region: MS_channel; pfam00924 880070000720 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 880070000721 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 880070000722 DNA binding site [nucleotide binding] 880070000723 active site 880070000724 Bacterial sugar transferase; Region: Bac_transf; pfam02397 880070000725 Na(+)/iodide (NIS) and Na(+)/multivitamin (SMVT) cotransporters, and related proteins; solute binding domain; Region: SLC5sbd_NIS-like; cd10326 880070000726 putative transporter; Provisional; Region: PRK10484 880070000727 Na binding site [ion binding]; other site 880070000728 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; pfam02617 880070000729 recombination protein RecR; Reviewed; Region: recR; PRK00076 880070000730 RecR protein; Region: RecR; pfam02132 880070000731 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 880070000732 putative active site [active] 880070000733 putative metal-binding site [ion binding]; other site 880070000734 tetramer interface [polypeptide binding]; other site 880070000735 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 880070000736 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880070000737 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 880070000738 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 880070000739 TRAM domain; Region: TRAM; cl01282 880070000740 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 880070000741 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 880070000742 Domain of unknown function DUF302; Region: DUF302; pfam03625 880070000743 Ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding domain of the alpha/beta class and a discrete (usually N-terminal) domain which varies in orientation with respect to the NAD(P) binding domain. The N-terminal region...; Region: FNR_like_1; cd06196 880070000744 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 880070000745 FAD binding pocket [chemical binding]; other site 880070000746 FAD binding motif [chemical binding]; other site 880070000747 phosphate binding motif [ion binding]; other site 880070000748 beta-alpha-beta structure motif; other site 880070000749 NAD binding pocket [chemical binding]; other site 880070000750 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 880070000751 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 880070000752 substrate binding pocket [chemical binding]; other site 880070000753 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 880070000754 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 880070000755 inhibitor-cofactor binding pocket; inhibition site 880070000756 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880070000757 catalytic residue [active] 880070000758 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 880070000759 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 880070000760 active site 880070000761 dimer interface [polypeptide binding]; other site 880070000762 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 880070000763 dimer interface [polypeptide binding]; other site 880070000764 active site 880070000765 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 880070000766 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880070000767 binding surface 880070000768 TPR motif; other site 880070000769 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880070000770 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880070000771 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 880070000772 binding surface 880070000773 TPR motif; other site 880070000774 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880070000775 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880070000776 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 880070000777 binding surface 880070000778 TPR motif; other site 880070000779 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880070000780 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 880070000781 ATP binding site [chemical binding]; other site 880070000782 Mg2+ binding site [ion binding]; other site 880070000783 G-X-G motif; other site 880070000784 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 880070000785 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u3; cd11495 880070000786 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 880070000787 Na binding site [ion binding]; other site 880070000788 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 880070000789 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 880070000790 inhibitor site; inhibition site 880070000791 active site 880070000792 dimer interface [polypeptide binding]; other site 880070000793 catalytic residue [active] 880070000794 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 880070000795 BNR repeat-like domain; Region: BNR_2; pfam13088 880070000796 catalytic site [active] 880070000797 Asp-box motif; other site 880070000798 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 880070000799 hexamer (dimer of trimers) interface [polypeptide binding]; other site 880070000800 substrate binding site [chemical binding]; other site 880070000801 trimer interface [polypeptide binding]; other site 880070000802 Mn binding site [ion binding]; other site 880070000803 Family description; Region: VCBS; pfam13517 880070000804 BNR repeat-like domain; Region: BNR_2; pfam13088 880070000805 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 880070000806 catalytic site [active] 880070000807 Asp-box motif; other site 880070000808 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 880070000809 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 880070000810 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 880070000811 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 880070000812 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 880070000813 metal-dependent hydrolase; Provisional; Region: PRK13291 880070000814 DinB superfamily; Region: DinB_2; pfam12867 880070000815 monoglyceride lipase; Provisional; Region: PHA02857 880070000816 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 880070000817 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 880070000818 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 880070000819 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 880070000820 binding surface 880070000821 TPR motif; other site 880070000822 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 880070000823 active site 880070000824 substrate binding site [chemical binding]; other site 880070000825 catalytic site [active] 880070000826 DEAD-like helicases superfamily; Region: DEXDc; smart00487 880070000827 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 880070000828 ATP binding site [chemical binding]; other site 880070000829 putative Mg++ binding site [ion binding]; other site 880070000830 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 880070000831 nucleotide binding region [chemical binding]; other site 880070000832 ATP-binding site [chemical binding]; other site 880070000833 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 880070000834 Part of AAA domain; Region: AAA_19; pfam13245 880070000835 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 880070000836 Family description; Region: UvrD_C_2; pfam13538 880070000837 BNR repeat-like domain; Region: BNR_2; pfam13088 880070000838 YhhN-like protein; Region: YhhN; cl01505 880070000839 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 880070000840 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 880070000841 Helix-turn-helix domain; Region: HTH_18; pfam12833 880070000842 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 880070000843 Aminopeptidase P, N-terminal domain; Region: AMP_N; smart01011 880070000844 proline aminopeptidase P II; Provisional; Region: PRK10879 880070000845 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 880070000846 active site 880070000847 Protein of unknown function (DUF4235); Region: DUF4235; pfam14019 880070000848 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 880070000849 Amidohydrolase; Region: Amidohydro_2; pfam04909 880070000850 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 880070000851 Neutral/alkaline non-lysosomal ceramidase; Region: Ceramidase_alk; cl04712 880070000852 Neutral/alkaline non-lysosomal ceramidase; Region: Ceramidase_alk; cl04712 880070000853 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 880070000854 starch binding outer membrane protein SusD; Region: SusD; cl17845 880070000855 SusD family; Region: SusD; pfam07980 880070000856 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070000857 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070000858 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070000859 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 880070000860 Lens epithelium-derived growth factor (LEDGF); Region: LEDGF; pfam11467 880070000861 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 880070000862 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4299 880070000863 Cupin domain; Region: Cupin_2; cl17218 880070000864 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 880070000865 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 880070000866 nucleotide binding site [chemical binding]; other site 880070000867 PspC domain; Region: PspC; cl00864 880070000868 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 880070000869 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 880070000870 Probable Catalytic site; other site 880070000871 metal-binding site 880070000872 hypothetical protein; Validated; Region: PRK00153 880070000873 histidyl-tRNA synthetase; Region: hisS; TIGR00442 880070000874 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 880070000875 dimer interface [polypeptide binding]; other site 880070000876 motif 1; other site 880070000877 active site 880070000878 motif 2; other site 880070000879 motif 3; other site 880070000880 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 880070000881 anticodon binding site; other site 880070000882 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 880070000883 active site 880070000884 metal binding site [ion binding]; metal-binding site 880070000885 homotetramer interface [polypeptide binding]; other site 880070000886 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 880070000887 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 880070000888 alpha subunit interface [polypeptide binding]; other site 880070000889 TPP binding site [chemical binding]; other site 880070000890 heterodimer interface [polypeptide binding]; other site 880070000891 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 880070000892 signal recognition particle protein; Provisional; Region: PRK10867 880070000893 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 880070000894 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 880070000895 P loop; other site 880070000896 GTP binding site [chemical binding]; other site 880070000897 Signal peptide binding domain; Region: SRP_SPB; pfam02978 880070000898 Domain of unknown function DUF11; Region: DUF11; cl17728 880070000899 Domain of unknown function DUF11; Region: DUF11; pfam01345 880070000900 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 880070000901 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 880070000902 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 880070000903 high affinity sulphate transporter 1; Region: sulP; TIGR00815 880070000904 Sulfate transporter family; Region: Sulfate_transp; pfam00916 880070000905 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 880070000906 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880070000907 NADH(P)-binding; Region: NAD_binding_10; pfam13460 880070000908 NAD(P) binding site [chemical binding]; other site 880070000909 active site 880070000910 Predicted membrane protein [Function unknown]; Region: COG4485 880070000911 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 880070000912 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 880070000913 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 880070000914 Repeats in polycystic kidney disease 1 (PKD1) and other proteins; Region: PKD; smart00089 880070000915 C-terminal domain of CHU protein family; Region: CHU_C; cl17875 880070000916 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 880070000917 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 880070000918 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 880070000919 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 880070000920 isocitrate dehydrogenase; Validated; Region: PRK09222 880070000921 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 880070000922 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 880070000923 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 880070000924 substrate binding site [chemical binding]; other site 880070000925 oxyanion hole (OAH) forming residues; other site 880070000926 trimer interface [polypeptide binding]; other site 880070000927 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 880070000928 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 880070000929 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 880070000930 trimer interface [polypeptide binding]; other site 880070000931 active site 880070000932 TPR repeat; Region: TPR_11; pfam13414 880070000933 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 880070000934 binding surface 880070000935 TPR motif; other site 880070000936 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 880070000937 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 880070000938 binding surface 880070000939 TPR motif; other site 880070000940 TPR repeat; Region: TPR_11; pfam13414 880070000941 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 880070000942 binding surface 880070000943 TPR motif; other site 880070000944 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 880070000945 binding surface 880070000946 TPR motif; other site 880070000947 Domain of unknown function (DUF4292); Region: DUF4292; pfam14125 880070000948 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 880070000949 Peptidase family M23; Region: Peptidase_M23; pfam01551 880070000950 mttA/Hcf106 family; Region: MttA_Hcf106; pfam02416 880070000951 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 880070000952 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 880070000953 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 880070000954 N-acetyl-D-glucosamine binding site [chemical binding]; other site 880070000955 catalytic residue [active] 880070000956 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 880070000957 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 880070000958 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 880070000959 Malic enzyme, N-terminal domain; Region: malic; pfam00390 880070000960 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 880070000961 putative NAD(P) binding site [chemical binding]; other site 880070000962 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 880070000963 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 880070000964 RuvA N terminal domain; Region: RuvA_N; pfam01330 880070000965 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 880070000966 cell surface protein SprA; Region: surface_SprA; TIGR04189 880070000967 Motility related/secretion protein; Region: SprA_N; pfam14349 880070000968 Motility related/secretion protein; Region: SprA_N; pfam14349 880070000969 Motility related/secretion protein; Region: SprA_N; pfam14349 880070000970 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 880070000971 lipoyl attachment site [posttranslational modification]; other site 880070000972 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 880070000973 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 880070000974 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; pfam09996 880070000975 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 880070000976 nudix motif; other site 880070000977 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 880070000978 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 880070000979 active site 880070000980 trimer interface [polypeptide binding]; other site 880070000981 allosteric site; other site 880070000982 active site lid [active] 880070000983 hexamer (dimer of trimers) interface [polypeptide binding]; other site 880070000984 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 880070000985 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 880070000986 active site 880070000987 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u1; cd11477 880070000988 Na binding site [ion binding]; other site 880070000989 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 880070000990 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 880070000991 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 880070000992 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 880070000993 DNA binding site [nucleotide binding] 880070000994 domain linker motif; other site 880070000995 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 880070000996 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 880070000997 ligand binding site [chemical binding]; other site 880070000998 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 880070000999 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 880070001000 active site 880070001001 metal binding site [ion binding]; metal-binding site 880070001002 Predicted transcriptional regulators [Transcription]; Region: COG1733 880070001003 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 880070001004 DsrE/DsrF-like family; Region: DrsE; pfam02635 880070001005 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 880070001006 Putative catalytic NodB homology domain of gellan lyase and similar proteins; Region: CE4_GLA_like_6s; cd10967 880070001007 putative active site [active] 880070001008 putative metal binding site [ion binding]; other site 880070001009 Neutral/alkaline non-lysosomal ceramidase; Region: Ceramidase_alk; cl04712 880070001010 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 880070001011 HEAT repeats; Region: HEAT_2; pfam13646 880070001012 Cytochrome c; Region: Cytochrom_C; cl11414 880070001013 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 880070001014 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 880070001015 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 880070001016 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 880070001017 catalytic residue [active] 880070001018 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070001019 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 880070001020 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 880070001021 NAD(P) binding site [chemical binding]; other site 880070001022 catalytic residues [active] 880070001023 hypothetical protein; Provisional; Region: PRK11820 880070001024 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 880070001025 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 880070001026 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 880070001027 Surface antigen; Region: Bac_surface_Ag; pfam01103 880070001028 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 880070001029 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 880070001030 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 880070001031 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 880070001032 Peptidase C25 family N-terminal domain, found in Arg-gingipain (Rgp), Lys-gingipain (Kgp) and related proteins; Region: Peptidase_C25_N; cd02258 880070001033 active site 880070001034 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 880070001035 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 880070001036 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 880070001037 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 880070001038 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 880070001039 active site 880070001040 Uncharacterized conserved protein [Function unknown]; Region: COG1739 880070001041 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 880070001042 DEDDy 3'-5' exonuclease domain of WRN and similar proteins; Region: WRN_exo; cd06141 880070001043 catalytic site [active] 880070001044 putative active site [active] 880070001045 putative substrate binding site [chemical binding]; other site 880070001046 Protein of unknown function (DUF962); Region: DUF962; cl01879 880070001047 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 880070001048 putative cation:proton antiport protein; Provisional; Region: PRK10669 880070001049 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 880070001050 TrkA-N domain; Region: TrkA_N; pfam02254 880070001051 TrkA-C domain; Region: TrkA_C; pfam02080 880070001052 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 880070001053 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 880070001054 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 880070001055 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 880070001056 FtsX-like permease family; Region: FtsX; pfam02687 880070001057 recombinase A; Provisional; Region: recA; PRK09354 880070001058 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 880070001059 hexamer interface [polypeptide binding]; other site 880070001060 Walker A motif; other site 880070001061 ATP binding site [chemical binding]; other site 880070001062 Walker B motif; other site 880070001063 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 880070001064 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 880070001065 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 880070001066 active site 880070001067 phosphorylation site [posttranslational modification] 880070001068 intermolecular recognition site; other site 880070001069 dimerization interface [polypeptide binding]; other site 880070001070 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 880070001071 DNA binding site [nucleotide binding] 880070001072 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 880070001073 dimer interface [polypeptide binding]; other site 880070001074 phosphorylation site [posttranslational modification] 880070001075 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 880070001076 ATP binding site [chemical binding]; other site 880070001077 Mg2+ binding site [ion binding]; other site 880070001078 G-X-G motif; other site 880070001079 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 880070001080 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 880070001081 active site 880070001082 Domain of unknown function (DUF4221); Region: DUF4221; pfam13970 880070001083 Domain of unknown function (DUF4221); Region: DUF4221; pfam13970 880070001084 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 880070001085 AZL_007920/MXAN_0976 family protein; Region: AZL_007920_fam; TIGR04052 880070001086 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 880070001087 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 880070001088 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 880070001089 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 880070001090 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 880070001091 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 880070001092 S-adenosylmethionine binding site [chemical binding]; other site 880070001093 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 880070001094 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 880070001095 N-acetyl-D-glucosamine binding site [chemical binding]; other site 880070001096 catalytic residue [active] 880070001097 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 880070001098 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 880070001099 Protein of unknown function (DUF3078); Region: DUF3078; pfam11276 880070001100 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 880070001101 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 880070001102 Coenzyme A binding pocket [chemical binding]; other site 880070001103 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 880070001104 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 880070001105 Walker A/P-loop; other site 880070001106 ATP binding site [chemical binding]; other site 880070001107 Q-loop/lid; other site 880070001108 ABC transporter signature motif; other site 880070001109 Walker B; other site 880070001110 D-loop; other site 880070001111 H-loop/switch region; other site 880070001112 sulfite oxidase; Provisional; Region: PLN00177 880070001113 Subgroup of sulfite oxidase (SO) family molybdopterin binding domains that contains conserved dimerization domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate...; Region: SO_family_Moco_dimer; cd02110 880070001114 Moco binding site; other site 880070001115 metal coordination site [ion binding]; other site 880070001116 dimerization interface [polypeptide binding]; other site 880070001117 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 880070001118 Protein of unknown function (DUF3748); Region: DUF3748; pfam12566 880070001119 alpha-glucosidase; Provisional; Region: PRK10426 880070001120 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 880070001121 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 880070001122 active site 880070001123 catalytic site [active] 880070001124 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 880070001125 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 880070001126 G1 box; other site 880070001127 putative GEF interaction site [polypeptide binding]; other site 880070001128 GTP/Mg2+ binding site [chemical binding]; other site 880070001129 Switch I region; other site 880070001130 G2 box; other site 880070001131 G3 box; other site 880070001132 Switch II region; other site 880070001133 G4 box; other site 880070001134 G5 box; other site 880070001135 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 880070001136 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 880070001137 6-phosphofructokinase; Provisional; Region: PRK03202 880070001138 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 880070001139 active site 880070001140 ADP/pyrophosphate binding site [chemical binding]; other site 880070001141 dimerization interface [polypeptide binding]; other site 880070001142 allosteric effector site; other site 880070001143 fructose-1,6-bisphosphate binding site; other site 880070001144 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 880070001145 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 880070001146 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 880070001147 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 880070001148 active site 880070001149 phosphorylation site [posttranslational modification] 880070001150 intermolecular recognition site; other site 880070001151 dimerization interface [polypeptide binding]; other site 880070001152 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 880070001153 putative binding surface; other site 880070001154 active site 880070001155 Response regulator receiver domain; Region: Response_reg; pfam00072 880070001156 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 880070001157 active site 880070001158 phosphorylation site [posttranslational modification] 880070001159 intermolecular recognition site; other site 880070001160 dimerization interface [polypeptide binding]; other site 880070001161 putative hydrolase; Provisional; Region: PRK02113 880070001162 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 880070001163 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 880070001164 Domain of unknown function (DUF814); Region: DUF814; pfam05670 880070001165 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 880070001166 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 880070001167 domain interfaces; other site 880070001168 active site 880070001169 acyl carrier protein; Provisional; Region: acpP; PRK00982 880070001170 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 880070001171 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 880070001172 dimer interface [polypeptide binding]; other site 880070001173 active site 880070001174 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 880070001175 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 880070001176 dimerization interface [polypeptide binding]; other site 880070001177 active site 880070001178 metal binding site [ion binding]; metal-binding site 880070001179 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 880070001180 dsRNA binding site [nucleotide binding]; other site 880070001181 NAD+ synthase (glutamine-hydrolysing); Region: PLN02339 880070001182 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 880070001183 multimer interface [polypeptide binding]; other site 880070001184 active site 880070001185 catalytic triad [active] 880070001186 protein interface 1 [polypeptide binding]; other site 880070001187 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 880070001188 homodimer interface [polypeptide binding]; other site 880070001189 NAD binding pocket [chemical binding]; other site 880070001190 ATP binding pocket [chemical binding]; other site 880070001191 Mg binding site [ion binding]; other site 880070001192 active-site loop [active] 880070001193 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 880070001194 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 880070001195 Haemolytic domain; Region: Haemolytic; pfam01809 880070001196 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 880070001197 Surface antigen; Region: Bac_surface_Ag; pfam01103 880070001198 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 880070001199 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 880070001200 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 880070001201 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 880070001202 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 880070001203 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 880070001204 non-specific DNA binding site [nucleotide binding]; other site 880070001205 salt bridge; other site 880070001206 sequence-specific DNA binding site [nucleotide binding]; other site 880070001207 AAA domain; Region: AAA_22; pfam13401 880070001208 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 880070001209 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 880070001210 Protein of unknown function (DUF935); Region: DUF935; pfam06074 880070001211 Right handed beta helix region; Region: Beta_helix; pfam13229 880070001212 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 880070001213 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 880070001214 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 880070001215 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 880070001216 Domain of unknown function (DUF4221); Region: DUF4221; pfam13970 880070001217 Uncharacterized conserved protein [Function unknown]; Region: COG2308 880070001218 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 880070001219 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 880070001220 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 880070001221 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 880070001222 active site 880070001223 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 880070001224 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 880070001225 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 880070001226 phosphodiesterase YaeI; Provisional; Region: PRK11340 880070001227 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 880070001228 putative active site [active] 880070001229 putative metal binding site [ion binding]; other site 880070001230 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 880070001231 Protein export membrane protein; Region: SecD_SecF; cl14618 880070001232 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 880070001233 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 880070001234 HlyD family secretion protein; Region: HlyD_3; pfam13437 880070001235 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 880070001236 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 880070001237 Sulfate transporter family; Region: Sulfate_transp; pfam00916 880070001238 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 880070001239 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 880070001240 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 880070001241 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 880070001242 transmembrane helices; other site 880070001243 KTSC domain; Region: KTSC; pfam13619 880070001244 Fic family protein [Function unknown]; Region: COG3177 880070001245 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 880070001246 Fic/DOC family; Region: Fic; pfam02661 880070001247 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 880070001248 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 880070001249 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 880070001250 ATP binding site [chemical binding]; other site 880070001251 putative Mg++ binding site [ion binding]; other site 880070001252 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 880070001253 nucleotide binding region [chemical binding]; other site 880070001254 ATP-binding site [chemical binding]; other site 880070001255 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; cl17426 880070001256 Transposase domain (DUF772); Region: DUF772; pfam05598 880070001257 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 880070001258 Right handed beta helix region; Region: Beta_helix; pfam13229 880070001259 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 880070001260 putative active site pocket [active] 880070001261 dimerization interface [polypeptide binding]; other site 880070001262 putative catalytic residue [active] 880070001263 Thermus thermophiles TTHB029 and similar proteins; Region: YdjC_TTHB029_like; cd10802 880070001264 putative active site [active] 880070001265 YdjC motif; other site 880070001266 Mg binding site [ion binding]; other site 880070001267 homodimer interface [polypeptide binding]; other site 880070001268 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 880070001269 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 880070001270 Coenzyme A binding pocket [chemical binding]; other site 880070001271 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 880070001272 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 880070001273 ATP-grasp domain; Region: ATP-grasp_4; cl17255 880070001274 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; pfam05014 880070001275 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 880070001276 substrate binding site [chemical binding]; other site 880070001277 THF binding site; other site 880070001278 zinc-binding site [ion binding]; other site 880070001279 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070001280 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 880070001281 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 880070001282 Domain of unknown function (DUF4114); Region: DUF4114; pfam13448 880070001283 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 880070001284 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 880070001285 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 880070001286 Surface antigen; Region: Bac_surface_Ag; pfam01103 880070001287 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 880070001288 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 880070001289 PAP2_like_4 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_4; cd03395 880070001290 active site 880070001291 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 880070001292 Lumazine binding domain; Region: Lum_binding; pfam00677 880070001293 Lumazine binding domain; Region: Lum_binding; pfam00677 880070001294 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 880070001295 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 880070001296 S-adenosylmethionine binding site [chemical binding]; other site 880070001297 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 880070001298 integral membrane protein; Region: integ_memb_HG; TIGR03954 880070001299 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 880070001300 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 880070001301 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 880070001302 dimerization interface [polypeptide binding]; other site 880070001303 DPS ferroxidase diiron center [ion binding]; other site 880070001304 ion pore; other site 880070001305 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 880070001306 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 880070001307 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 880070001308 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 880070001309 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 880070001310 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 880070001311 catalytic residues [active] 880070001312 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 880070001313 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 880070001314 GatB domain; Region: GatB_Yqey; smart00845 880070001315 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 880070001316 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 880070001317 motif 1; other site 880070001318 active site 880070001319 motif 2; other site 880070001320 motif 3; other site 880070001321 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 880070001322 DHHA1 domain; Region: DHHA1; pfam02272 880070001323 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 880070001324 Peptidase family M23; Region: Peptidase_M23; pfam01551 880070001325 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 880070001326 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 880070001327 DNA binding residues [nucleotide binding] 880070001328 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 880070001329 DNA protecting protein DprA; Region: dprA; TIGR00732 880070001330 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 880070001331 Peptidase family M23; Region: Peptidase_M23; pfam01551 880070001332 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 880070001333 intracellular protease, PfpI family; Region: PfpI; TIGR01382 880070001334 proposed catalytic triad [active] 880070001335 conserved cys residue [active] 880070001336 DNA polymerase III subunit beta; Validated; Region: PRK05643 880070001337 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 880070001338 putative DNA binding surface [nucleotide binding]; other site 880070001339 dimer interface [polypeptide binding]; other site 880070001340 beta-clamp/clamp loader binding surface; other site 880070001341 beta-clamp/translesion DNA polymerase binding surface; other site 880070001342 gliding-associated putative ABC transporter substrate-binding component GldG; Region: GldG; TIGR03521 880070001343 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 880070001344 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 880070001345 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880070001346 Walker A/P-loop; other site 880070001347 ATP binding site [chemical binding]; other site 880070001348 Q-loop/lid; other site 880070001349 ABC transporter signature motif; other site 880070001350 Walker B; other site 880070001351 D-loop; other site 880070001352 H-loop/switch region; other site 880070001353 Phosphoglycerate kinase; Region: PGK; pfam00162 880070001354 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 880070001355 substrate binding site [chemical binding]; other site 880070001356 hinge regions; other site 880070001357 ADP binding site [chemical binding]; other site 880070001358 catalytic site [active] 880070001359 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 880070001360 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 880070001361 TPR repeat; Region: TPR_11; pfam13414 880070001362 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 880070001363 binding surface 880070001364 TPR motif; other site 880070001365 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 880070001366 binding surface 880070001367 TPR motif; other site 880070001368 TPR repeat; Region: TPR_11; pfam13414 880070001369 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 880070001370 binding surface 880070001371 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880070001372 TPR motif; other site 880070001373 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity. They also contain a...; Region: Nudix_Hydrolase_1; cd03674 880070001374 nudix motif; other site 880070001375 DEAD-like helicases superfamily; Region: DEXDc; smart00487 880070001376 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 880070001377 ATP binding site [chemical binding]; other site 880070001378 putative Mg++ binding site [ion binding]; other site 880070001379 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 880070001380 nucleotide binding region [chemical binding]; other site 880070001381 ATP-binding site [chemical binding]; other site 880070001382 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 880070001383 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 880070001384 Competence protein; Region: Competence; pfam03772 880070001385 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 880070001386 Coenzyme A binding pocket [chemical binding]; other site 880070001387 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 880070001388 PhoH-like protein; Region: PhoH; pfam02562 880070001389 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 880070001390 Abi-like protein; Region: Abi_2; pfam07751 880070001391 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 880070001392 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 880070001393 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 880070001394 Domain of unknown function DUF20; Region: UPF0118; pfam01594 880070001395 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 880070001396 HEAT repeats; Region: HEAT_2; pfam13646 880070001397 Cytochrome c; Region: Cytochrom_C; cl11414 880070001398 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 880070001399 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 880070001400 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 880070001401 Active Sites [active] 880070001402 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 880070001403 putative substrate translocation pore; other site 880070001404 Major Facilitator Superfamily; Region: MFS_1; pfam07690 880070001405 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 880070001406 active site 880070001407 HIGH motif; other site 880070001408 nucleotide binding site [chemical binding]; other site 880070001409 active site 880070001410 KMSKS motif; other site 880070001411 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 880070001412 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 880070001413 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 880070001414 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 880070001415 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 880070001416 Mg++ binding site [ion binding]; other site 880070001417 putative catalytic motif [active] 880070001418 substrate binding site [chemical binding]; other site 880070001419 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 880070001420 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl17369 880070001421 Oligosaccharide biosynthesis protein Alg14 like; Region: Alg14; pfam08660 880070001422 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 880070001423 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 880070001424 active site 880070001425 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 880070001426 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 880070001427 active site 880070001428 Chain length determinant protein; Region: Wzz; cl15801 880070001429 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 880070001430 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 880070001431 active site 880070001432 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 880070001433 SLBB domain; Region: SLBB; pfam10531 880070001434 SLBB domain; Region: SLBB; pfam10531 880070001435 SLBB domain; Region: SLBB; pfam10531 880070001436 SLBB domain; Region: SLBB; pfam10531 880070001437 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 880070001438 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 880070001439 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 880070001440 NADP-binding site; other site 880070001441 homotetramer interface [polypeptide binding]; other site 880070001442 substrate binding site [chemical binding]; other site 880070001443 homodimer interface [polypeptide binding]; other site 880070001444 active site 880070001445 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 880070001446 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 880070001447 NADP binding site [chemical binding]; other site 880070001448 active site 880070001449 putative substrate binding site [chemical binding]; other site 880070001450 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 880070001451 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 880070001452 Substrate binding site; other site 880070001453 Cupin domain; Region: Cupin_2; cl17218 880070001454 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), UpxY; Region: NGN_SP_UpxY; cd09895 880070001455 transcriptional activator RfaH; Region: RfaH; TIGR01955 880070001456 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 880070001457 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 880070001458 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 880070001459 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 880070001460 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 880070001461 dimer interface [polypeptide binding]; other site 880070001462 ssDNA binding site [nucleotide binding]; other site 880070001463 tetramer (dimer of dimers) interface [polypeptide binding]; other site 880070001464 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 880070001465 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 880070001466 active site 880070001467 HslU subunit interaction site [polypeptide binding]; other site 880070001468 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 880070001469 E3 interaction surface; other site 880070001470 lipoyl attachment site [posttranslational modification]; other site 880070001471 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 880070001472 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 880070001473 E3 interaction surface; other site 880070001474 lipoyl attachment site [posttranslational modification]; other site 880070001475 e3 binding domain; Region: E3_binding; pfam02817 880070001476 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 880070001477 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 880070001478 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 880070001479 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 880070001480 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 880070001481 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 880070001482 active site 880070001483 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 880070001484 ABC-2 type transporter; Region: ABC2_membrane; cl17235 880070001485 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 880070001486 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 880070001487 Walker A/P-loop; other site 880070001488 ATP binding site [chemical binding]; other site 880070001489 Q-loop/lid; other site 880070001490 ABC transporter signature motif; other site 880070001491 Walker B; other site 880070001492 D-loop; other site 880070001493 H-loop/switch region; other site 880070001494 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 880070001495 putative carbohydrate binding site [chemical binding]; other site 880070001496 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 880070001497 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 880070001498 active site 880070001499 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 880070001500 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 880070001501 active site 880070001502 Methyltransferase domain; Region: Methyltransf_23; pfam13489 880070001503 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 880070001504 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 880070001505 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 880070001506 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 880070001507 putative active site [active] 880070001508 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 880070001509 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 880070001510 active site 880070001511 Exostosin family; Region: Exostosin; pfam03016 880070001512 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 880070001513 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 880070001514 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880070001515 Walker A/P-loop; other site 880070001516 ATP binding site [chemical binding]; other site 880070001517 Q-loop/lid; other site 880070001518 ABC transporter signature motif; other site 880070001519 Walker B; other site 880070001520 D-loop; other site 880070001521 H-loop/switch region; other site 880070001522 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 880070001523 Bacterial sugar transferase; Region: Bac_transf; pfam02397 880070001524 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 880070001525 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 880070001526 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 880070001527 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 880070001528 G3 box; other site 880070001529 Switch II region; other site 880070001530 Sulfotransferase family; Region: Sulfotransfer_3; pfam13469 880070001531 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 880070001532 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG1817 880070001533 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 880070001534 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 880070001535 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 880070001536 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 880070001537 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 880070001538 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 880070001539 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 880070001540 Glycosyl transferase 4-like domain; Region: Glyco_trans_4_4; cl17183 880070001541 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 880070001542 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 880070001543 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 880070001544 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 880070001545 putative active site [active] 880070001546 putative metal binding site [ion binding]; other site 880070001547 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 880070001548 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 880070001549 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 880070001550 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 880070001551 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 880070001552 Galactose oxidase, central domain; Region: Kelch_4; pfam13418 880070001553 Kelch motif; Region: Kelch_6; pfam13964 880070001554 Kelch motif; Region: Kelch_1; pfam01344 880070001555 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 880070001556 Interdomain contacts; other site 880070001557 Cytokine receptor motif; other site 880070001558 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 880070001559 Interdomain contacts; other site 880070001560 Cytokine receptor motif; other site 880070001561 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 880070001562 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 880070001563 Interdomain contacts; other site 880070001564 Cytokine receptor motif; other site 880070001565 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 880070001566 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 880070001567 Interdomain contacts; other site 880070001568 Cytokine receptor motif; other site 880070001569 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 880070001570 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 880070001571 Interdomain contacts; other site 880070001572 Cytokine receptor motif; other site 880070001573 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 880070001574 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880070001575 Polysaccharide lyase; Region: Polysacc_lyase; pfam14099 880070001576 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 880070001577 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 880070001578 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 880070001579 active site 880070001580 Polysaccharide lyase; Region: Polysacc_lyase; pfam14099 880070001581 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 880070001582 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 880070001583 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 880070001584 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 880070001585 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 880070001586 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 880070001587 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880070001588 Walker A/P-loop; other site 880070001589 ATP binding site [chemical binding]; other site 880070001590 Q-loop/lid; other site 880070001591 ABC transporter signature motif; other site 880070001592 Walker B; other site 880070001593 D-loop; other site 880070001594 H-loop/switch region; other site 880070001595 Polysaccharide lyase; Region: Polysacc_lyase; pfam14099 880070001596 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 880070001597 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 880070001598 Interdomain contacts; other site 880070001599 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 880070001600 Cytokine receptor motif; other site 880070001601 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 880070001602 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 880070001603 Interdomain contacts; other site 880070001604 Cytokine receptor motif; other site 880070001605 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 880070001606 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 880070001607 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 880070001608 Interdomain contacts; other site 880070001609 Cytokine receptor motif; other site 880070001610 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 880070001611 Interdomain contacts; other site 880070001612 Cytokine receptor motif; other site 880070001613 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880070001614 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 880070001615 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 880070001616 dimer interface [polypeptide binding]; other site 880070001617 active site 880070001618 CoA binding pocket [chemical binding]; other site 880070001619 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 880070001620 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 880070001621 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 880070001622 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 880070001623 Peptidase C25 family N-terminal domain, found in Arg-gingipain (Rgp), Lys-gingipain (Kgp) and related proteins; Region: Peptidase_C25_N; cl03181 880070001624 active site 880070001625 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 880070001626 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 880070001627 Predicted transcriptional regulators [Transcription]; Region: COG1695 880070001628 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 880070001629 putative DNA binding site [nucleotide binding]; other site 880070001630 putative Zn2+ binding site [ion binding]; other site 880070001631 PspC domain; Region: PspC; pfam04024 880070001632 PspC domain; Region: PspC; pfam04024 880070001633 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 880070001634 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 880070001635 Beta-Casp domain; Region: Beta-Casp; smart01027 880070001636 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 880070001637 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 880070001638 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 880070001639 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880070001640 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 880070001641 DNA binding residues [nucleotide binding] 880070001642 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 880070001643 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 880070001644 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 880070001645 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 880070001646 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 880070001647 FAD binding pocket [chemical binding]; other site 880070001648 FAD binding motif [chemical binding]; other site 880070001649 phosphate binding motif [ion binding]; other site 880070001650 beta-alpha-beta structure motif; other site 880070001651 NAD(p) ribose binding residues [chemical binding]; other site 880070001652 NAD binding pocket [chemical binding]; other site 880070001653 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 880070001654 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 880070001655 catalytic loop [active] 880070001656 iron binding site [ion binding]; other site 880070001657 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 880070001658 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 880070001659 adenylosuccinate lyase; Provisional; Region: PRK09285 880070001660 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 880070001661 tetramer interface [polypeptide binding]; other site 880070001662 active site 880070001663 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 880070001664 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 880070001665 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 880070001666 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_2; cd03402 880070001667 Major Facilitator Superfamily; Region: MFS_1; pfam07690 880070001668 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 880070001669 putative substrate translocation pore; other site 880070001670 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 880070001671 Mechanosensitive ion channel; Region: MS_channel; pfam00924 880070001672 Right handed beta helix region; Region: Beta_helix; pfam13229 880070001673 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 880070001674 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 880070001675 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 880070001676 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880070001677 Right handed beta helix region; Region: Beta_helix; pfam13229 880070001678 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 880070001679 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 880070001680 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 880070001681 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880070001682 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 880070001683 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 880070001684 Exostosin family; Region: Exostosin; pfam03016 880070001685 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 880070001686 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 880070001687 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 880070001688 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 880070001689 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 880070001690 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 880070001691 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 880070001692 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 880070001693 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 880070001694 putative NAD(P) binding site [chemical binding]; other site 880070001695 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 880070001696 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 880070001697 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 880070001698 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 880070001699 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 880070001700 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 880070001701 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 880070001702 This family is most closely related to the GT1 family of glycosyltransferases. wcfI in Bacteroides fragilis has been shown to be involved in the capsular polysaccharide biosynthesis; Region: GT1_wcfI_like; cd03825 880070001703 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 880070001704 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cd12082 880070001705 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 880070001706 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 880070001707 AAA domain; Region: AAA_31; pfam13614 880070001708 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 880070001709 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 880070001710 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 880070001711 Bacterial sugar transferase; Region: Bac_transf; pfam02397 880070001712 Bacterial sugar transferase; Region: Bac_transf; pfam02397 880070001713 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 880070001714 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 880070001715 substrate binding site [chemical binding]; other site 880070001716 active site 880070001717 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 880070001718 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 880070001719 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 880070001720 Walker A/P-loop; other site 880070001721 ATP binding site [chemical binding]; other site 880070001722 Q-loop/lid; other site 880070001723 ABC transporter signature motif; other site 880070001724 Walker B; other site 880070001725 D-loop; other site 880070001726 H-loop/switch region; other site 880070001727 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 880070001728 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 880070001729 dimerization interface 3.5A [polypeptide binding]; other site 880070001730 active site 880070001731 Domain of unknown function (DUF4293); Region: DUF4293; pfam14126 880070001732 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 880070001733 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 880070001734 homodimer interface [polypeptide binding]; other site 880070001735 substrate-cofactor binding pocket; other site 880070001736 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880070001737 catalytic residue [active] 880070001738 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 880070001739 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 880070001740 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 880070001741 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 880070001742 Walker A motif; other site 880070001743 ATP binding site [chemical binding]; other site 880070001744 Walker B motif; other site 880070001745 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 880070001746 Protein of unknown function, DUF485; Region: DUF485; pfam04341 880070001747 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 880070001748 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 880070001749 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 880070001750 Walker A/P-loop; other site 880070001751 ATP binding site [chemical binding]; other site 880070001752 Q-loop/lid; other site 880070001753 ABC transporter signature motif; other site 880070001754 Walker B; other site 880070001755 D-loop; other site 880070001756 H-loop/switch region; other site 880070001757 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 880070001758 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: alt_bact_glmU; TIGR03991 880070001759 Sugar nucleotidyl transferase; Region: NTP_transf_4; pfam13562 880070001760 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 880070001761 putative trimer interface [polypeptide binding]; other site 880070001762 putative CoA binding site [chemical binding]; other site 880070001763 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 880070001764 putative trimer interface [polypeptide binding]; other site 880070001765 putative CoA binding site [chemical binding]; other site 880070001766 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 880070001767 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 880070001768 DNA polymerase III subunit delta'; Validated; Region: PRK08485 880070001769 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 880070001770 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 880070001771 ATP-grasp domain; Region: ATP-grasp_4; cl17255 880070001772 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 880070001773 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl17708 880070001774 domain interfaces; other site 880070001775 active site 880070001776 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 880070001777 active site 880070001778 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 880070001779 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 880070001780 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 880070001781 NADP binding site [chemical binding]; other site 880070001782 active site 880070001783 putative substrate binding site [chemical binding]; other site 880070001784 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 880070001785 Na2 binding site [ion binding]; other site 880070001786 putative substrate binding site 1 [chemical binding]; other site 880070001787 Na binding site 1 [ion binding]; other site 880070001788 putative substrate binding site 2 [chemical binding]; other site 880070001789 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 880070001790 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 880070001791 putative protofilament interface [polypeptide binding]; other site 880070001792 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 880070001793 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 880070001794 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 880070001795 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 880070001796 Domain of unknown function (DUF368); Region: DUF368; cl00893 880070001797 phosphodiesterase; Provisional; Region: PRK12704 880070001798 KH domain; Region: KH_1; pfam00013 880070001799 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 880070001800 Zn2+ binding site [ion binding]; other site 880070001801 Mg2+ binding site [ion binding]; other site 880070001802 Cell division protein ZapA; Region: ZapA; pfam05164 880070001803 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 880070001804 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 880070001805 putative tRNA-binding site [nucleotide binding]; other site 880070001806 B3/4 domain; Region: B3_4; pfam03483 880070001807 tRNA synthetase B5 domain; Region: B5; pfam03484 880070001808 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 880070001809 dimer interface [polypeptide binding]; other site 880070001810 motif 1; other site 880070001811 motif 3; other site 880070001812 motif 2; other site 880070001813 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 880070001814 Protein of unknown function (DUF1684); Region: DUF1684; pfam07920 880070001815 hypothetical protein; Reviewed; Region: PRK00024 880070001816 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 880070001817 MPN+ (JAMM) motif; other site 880070001818 Zinc-binding site [ion binding]; other site 880070001819 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 880070001820 Zinc dependent phospholipase C/S1-P1 nuclease; Region: ZnPC_S1P1; cd10981 880070001821 Zn binding site [ion binding]; other site 880070001822 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 880070001823 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 880070001824 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880070001825 homodimer interface [polypeptide binding]; other site 880070001826 catalytic residue [active] 880070001827 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 880070001828 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880070001829 Walker A/P-loop; other site 880070001830 ATP binding site [chemical binding]; other site 880070001831 Q-loop/lid; other site 880070001832 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 880070001833 ABC transporter; Region: ABC_tran_2; pfam12848 880070001834 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 880070001835 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 880070001836 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 880070001837 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 880070001838 Histidine kinase; Region: His_kinase; pfam06580 880070001839 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 880070001840 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 880070001841 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 880070001842 substrate binding site; other site 880070001843 dimer interface; other site 880070001844 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 880070001845 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 880070001846 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 880070001847 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 880070001848 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 880070001849 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 880070001850 dimerization interface [polypeptide binding]; other site 880070001851 ligand binding site [chemical binding]; other site 880070001852 NADP binding site [chemical binding]; other site 880070001853 catalytic site [active] 880070001854 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 880070001855 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 880070001856 oligomer interface [polypeptide binding]; other site 880070001857 active site 880070001858 metal binding site [ion binding]; metal-binding site 880070001859 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 880070001860 REG-2-like, HAD superfamily (subfamily IA) hydrolase; Region: DREG-2; TIGR02252 880070001861 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 880070001862 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 880070001863 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 880070001864 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 880070001865 Beta-lactamase; Region: Beta-lactamase; pfam00144 880070001866 EthD domain; Region: EthD; cl17553 880070001867 Domain of unknown function (DUF4185); Region: DUF4185; pfam13810 880070001868 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 880070001869 Protein of unknown function (DUF1593); Region: DUF1593; pfam07632 880070001870 Abhydrolase family; Region: Abhydrolase_7; pfam12715 880070001871 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880070001872 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 880070001873 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 880070001874 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070001875 Sulfatase; Region: Sulfatase; cl17466 880070001876 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 880070001877 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 880070001878 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070001879 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070001880 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070001881 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 880070001882 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 880070001883 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 880070001884 starch binding outer membrane protein SusD; Region: SusD; cd08977 880070001885 Outer membrane efflux protein; Region: OEP; pfam02321 880070001886 Outer membrane efflux protein; Region: OEP; pfam02321 880070001887 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 880070001888 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 880070001889 HlyD family secretion protein; Region: HlyD_3; pfam13437 880070001890 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 880070001891 MarR family; Region: MarR_2; pfam12802 880070001892 Mechanosensitive ion channel; Region: MS_channel; pfam00924 880070001893 outer membrane lipoprotein Blc; Provisional; Region: PRK10477 880070001894 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 880070001895 exopolyphosphatase; Region: exo_poly_only; TIGR03706 880070001896 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 880070001897 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 880070001898 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 880070001899 Amino acid permease; Region: AA_permease; pfam00324 880070001900 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 880070001901 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 880070001902 active site 880070001903 Zn binding site [ion binding]; other site 880070001904 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 880070001905 Uncharacterized protein family (UPF0156); Region: RHH_2; pfam03693 880070001906 DinB family; Region: DinB; cl17821 880070001907 DinB superfamily; Region: DinB_2; pfam12867 880070001908 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 880070001909 putative active site [active] 880070001910 PAS fold; Region: PAS_3; pfam08447 880070001911 heme pocket [chemical binding]; other site 880070001912 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 880070001913 PAS fold; Region: PAS_3; pfam08447 880070001914 putative active site [active] 880070001915 heme pocket [chemical binding]; other site 880070001916 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 880070001917 PAS fold; Region: PAS_3; pfam08447 880070001918 putative active site [active] 880070001919 heme pocket [chemical binding]; other site 880070001920 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 880070001921 PAS fold; Region: PAS_3; pfam08447 880070001922 putative active site [active] 880070001923 heme pocket [chemical binding]; other site 880070001924 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880070001925 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 880070001926 dimer interface [polypeptide binding]; other site 880070001927 phosphorylation site [posttranslational modification] 880070001928 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 880070001929 ATP binding site [chemical binding]; other site 880070001930 Mg2+ binding site [ion binding]; other site 880070001931 G-X-G motif; other site 880070001932 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 880070001933 Response regulator receiver domain; Region: Response_reg; pfam00072 880070001934 active site 880070001935 phosphorylation site [posttranslational modification] 880070001936 intermolecular recognition site; other site 880070001937 dimerization interface [polypeptide binding]; other site 880070001938 Response regulator receiver domain; Region: Response_reg; pfam00072 880070001939 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 880070001940 active site 880070001941 phosphorylation site [posttranslational modification] 880070001942 intermolecular recognition site; other site 880070001943 dimerization interface [polypeptide binding]; other site 880070001944 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 880070001945 Uncharacterized protein family (UPF0156); Region: RHH_2; pfam03693 880070001946 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; cd00172 880070001947 reactive center loop; other site 880070001948 Domain of unknown function (DUF4221); Region: DUF4221; pfam13970 880070001949 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 880070001950 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 880070001951 active site pocket [active] 880070001952 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070001953 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070001954 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070001955 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 880070001956 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 880070001957 starch binding outer membrane protein SusD; Region: SusD; cd08977 880070001958 galactonate dehydratase; Provisional; Region: PRK14017 880070001959 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 880070001960 metal binding site [ion binding]; metal-binding site 880070001961 substrate binding pocket [chemical binding]; other site 880070001962 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 880070001963 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 880070001964 metal binding site [ion binding]; metal-binding site 880070001965 substrate binding pocket [chemical binding]; other site 880070001966 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 880070001967 four helix bundle protein; Region: TIGR02436 880070001968 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070001969 Sulfatase; Region: Sulfatase; pfam00884 880070001970 Pseudouridylate synthase [Translation, ribosomal structure and biogenesis]; Region: TruA; COG0101 880070001971 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 880070001972 active site 880070001973 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 880070001974 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 880070001975 putative substrate translocation pore; other site 880070001976 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 880070001977 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 880070001978 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 880070001979 putative substrate binding site [chemical binding]; other site 880070001980 putative ATP binding site [chemical binding]; other site 880070001981 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 880070001982 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase-like 1; Region: PLPDE_III_AR_like_1; cd06815 880070001983 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 880070001984 dimer interface [polypeptide binding]; other site 880070001985 active site 880070001986 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 880070001987 substrate binding site [chemical binding]; other site 880070001988 catalytic residue [active] 880070001989 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 880070001990 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 880070001991 Coenzyme A binding pocket [chemical binding]; other site 880070001992 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 880070001993 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 880070001994 Na binding site [ion binding]; other site 880070001995 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 880070001996 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 880070001997 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 880070001998 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 880070001999 L-aspartate oxidase; Provisional; Region: PRK06175 880070002000 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 880070002001 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 880070002002 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 880070002003 putative Iron-sulfur protein interface [polypeptide binding]; other site 880070002004 proximal heme binding site [chemical binding]; other site 880070002005 distal heme binding site [chemical binding]; other site 880070002006 putative dimer interface [polypeptide binding]; other site 880070002007 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 880070002008 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 880070002009 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 880070002010 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 880070002011 catalytic center binding site [active] 880070002012 ATP binding site [chemical binding]; other site 880070002013 signal peptide peptidase SppA, 67K type; Region: SppA_67K; TIGR00705 880070002014 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 880070002015 tandem repeat interface [polypeptide binding]; other site 880070002016 oligomer interface [polypeptide binding]; other site 880070002017 active site residues [active] 880070002018 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 880070002019 tandem repeat interface [polypeptide binding]; other site 880070002020 oligomer interface [polypeptide binding]; other site 880070002021 active site residues [active] 880070002022 Exonuclease-Endonuclease-Phosphatase domain; uncharacterized family 1; Region: EEP-1; cd09083 880070002023 putative catalytic site [active] 880070002024 putative metal binding site [ion binding]; other site 880070002025 putative phosphate binding site [ion binding]; other site 880070002026 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 880070002027 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 880070002028 active site 880070002029 HIGH motif; other site 880070002030 nucleotide binding site [chemical binding]; other site 880070002031 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 880070002032 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 880070002033 active site 880070002034 KMSKS motif; other site 880070002035 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 880070002036 tRNA binding surface [nucleotide binding]; other site 880070002037 anticodon binding site; other site 880070002038 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 880070002039 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 880070002040 dimer interface [polypeptide binding]; other site 880070002041 substrate binding site [chemical binding]; other site 880070002042 metal binding sites [ion binding]; metal-binding site 880070002043 Response regulator receiver domain; Region: Response_reg; pfam00072 880070002044 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 880070002045 active site 880070002046 phosphorylation site [posttranslational modification] 880070002047 intermolecular recognition site; other site 880070002048 dimerization interface [polypeptide binding]; other site 880070002049 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880070002050 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 880070002051 dimer interface [polypeptide binding]; other site 880070002052 phosphorylation site [posttranslational modification] 880070002053 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 880070002054 ATP binding site [chemical binding]; other site 880070002055 Mg2+ binding site [ion binding]; other site 880070002056 G-X-G motif; other site 880070002057 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 880070002058 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 880070002059 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880070002060 dimer interface [polypeptide binding]; other site 880070002061 phosphorylation site [posttranslational modification] 880070002062 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 880070002063 ATP binding site [chemical binding]; other site 880070002064 Mg2+ binding site [ion binding]; other site 880070002065 G-X-G motif; other site 880070002066 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; cd01483 880070002067 ATP binding site [chemical binding]; other site 880070002068 substrate interface [chemical binding]; other site 880070002069 Response regulator receiver domain; Region: Response_reg; pfam00072 880070002070 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 880070002071 active site 880070002072 phosphorylation site [posttranslational modification] 880070002073 intermolecular recognition site; other site 880070002074 dimerization interface [polypeptide binding]; other site 880070002075 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 880070002076 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 880070002077 hexamer interface [polypeptide binding]; other site 880070002078 ligand binding site [chemical binding]; other site 880070002079 putative active site [active] 880070002080 NAD(P) binding site [chemical binding]; other site 880070002081 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 880070002082 Response regulator receiver domain; Region: Response_reg; pfam00072 880070002083 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 880070002084 active site 880070002085 phosphorylation site [posttranslational modification] 880070002086 intermolecular recognition site; other site 880070002087 dimerization interface [polypeptide binding]; other site 880070002088 PglZ domain; Region: PglZ; pfam08665 880070002089 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 880070002090 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 880070002091 Zn2+ binding site [ion binding]; other site 880070002092 Mg2+ binding site [ion binding]; other site 880070002093 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 880070002094 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 880070002095 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 880070002096 trimer interface [polypeptide binding]; other site 880070002097 active site 880070002098 UDP-GlcNAc binding site [chemical binding]; other site 880070002099 lipid binding site [chemical binding]; lipid-binding site 880070002100 bifunctional UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase/(3R)-hydroxymyristoyl-[acyl-carrier-protein] dehydratase; Reviewed; Region: PRK13188 880070002101 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 880070002102 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 880070002103 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 880070002104 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 880070002105 active site 880070002106 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 880070002107 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880070002108 Walker A/P-loop; other site 880070002109 ATP binding site [chemical binding]; other site 880070002110 Q-loop/lid; other site 880070002111 ABC transporter signature motif; other site 880070002112 Walker B; other site 880070002113 D-loop; other site 880070002114 H-loop/switch region; other site 880070002115 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 880070002116 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 880070002117 MutS domain III; Region: MutS_III; pfam05192 880070002118 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880070002119 Walker A/P-loop; other site 880070002120 ATP binding site [chemical binding]; other site 880070002121 Q-loop/lid; other site 880070002122 ABC transporter signature motif; other site 880070002123 Walker B; other site 880070002124 D-loop; other site 880070002125 H-loop/switch region; other site 880070002126 Smr domain; Region: Smr; pfam01713 880070002127 Domain of unknown function (DUF4296); Region: DUF4296; pfam14129 880070002128 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 880070002129 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 880070002130 metal ion-dependent adhesion site (MIDAS); other site 880070002131 VWA BatA type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_BatA_type; cd01467 880070002132 metal ion-dependent adhesion site (MIDAS); other site 880070002133 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 880070002134 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 880070002135 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 880070002136 Amidohydrolase; Region: Amidohydro_2; pfam04909 880070002137 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 880070002138 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 880070002139 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880070002140 catalytic residue [active] 880070002141 Family description; Region: VCBS; pfam13517 880070002142 Family description; Region: VCBS; pfam13517 880070002143 Family description; Region: VCBS; pfam13517 880070002144 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 880070002145 Family description; Region: VCBS; pfam13517 880070002146 Family description; Region: VCBS; pfam13517 880070002147 Family description; Region: VCBS; pfam13517 880070002148 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 880070002149 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 880070002150 starch binding outer membrane protein SusD; Region: SusD; cl17845 880070002151 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070002152 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070002153 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070002154 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 880070002155 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 880070002156 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 880070002157 catalytic residue [active] 880070002158 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 880070002159 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 880070002160 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 880070002161 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 880070002162 dimer interface [polypeptide binding]; other site 880070002163 catalytic triad [active] 880070002164 Members of the SGNH-hydrolase superfamily, 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_like_1; cd01832 880070002165 active site 880070002166 catalytic triad [active] 880070002167 oxyanion hole [active] 880070002168 short chain dehydrogenase; Provisional; Region: PRK06701 880070002169 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 880070002170 NAD binding site [chemical binding]; other site 880070002171 metal binding site [ion binding]; metal-binding site 880070002172 active site 880070002173 YqcI/YcgG family; Region: YqcI_YcgG; cl01349 880070002174 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 880070002175 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 880070002176 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 880070002177 AAA domain; Region: AAA_30; pfam13604 880070002178 Family description; Region: UvrD_C_2; pfam13538 880070002179 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 880070002180 nudix motif; other site 880070002181 Protein of unknown function (DUF3822); Region: DUF3822; pfam12864 880070002182 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 880070002183 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 880070002184 active site 880070002185 (T/H)XGH motif; other site 880070002186 Diadenosine hexaphosphate (Ap6A) hydrolase is a member of the Nudix hydrolase superfamily. Ap6A hydrolase specifically hydrolyzes diadenosine polyphosphates, but not ATP or diadenosine triphosphate, and it generates ATP as the product. Ap6A, the most...; Region: Ap6A_hydrolase; cd03673 880070002187 active site 880070002188 Ap6A binding site [chemical binding]; other site 880070002189 nudix motif; other site 880070002190 metal binding site [ion binding]; metal-binding site 880070002191 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 880070002192 active site 880070002193 Protein of unknown function (DUF2400); Region: DUF2400; pfam09674 880070002194 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 880070002195 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 880070002196 G1 box; other site 880070002197 putative GEF interaction site [polypeptide binding]; other site 880070002198 GTP/Mg2+ binding site [chemical binding]; other site 880070002199 Switch I region; other site 880070002200 G2 box; other site 880070002201 G3 box; other site 880070002202 Switch II region; other site 880070002203 G4 box; other site 880070002204 G5 box; other site 880070002205 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 880070002206 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 880070002207 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 880070002208 active site 880070002209 TraB family; Region: TraB; pfam01963 880070002210 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 880070002211 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 880070002212 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 880070002213 homodimer interface [polypeptide binding]; other site 880070002214 substrate-cofactor binding pocket; other site 880070002215 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880070002216 catalytic residue [active] 880070002217 Smr domain; Region: Smr; pfam01713 880070002218 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 880070002219 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 880070002220 active site 880070002221 HIGH motif; other site 880070002222 nucleotide binding site [chemical binding]; other site 880070002223 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 880070002224 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 880070002225 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 880070002226 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 880070002227 active site 880070002228 KMSKS motif; other site 880070002229 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 880070002230 tRNA binding surface [nucleotide binding]; other site 880070002231 Anticodon-binding domain of tRNA; Region: Anticodon_1; pfam08264 880070002232 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 880070002233 Mechanosensitive ion channel; Region: MS_channel; pfam00924 880070002234 Predicted amidohydrolase [General function prediction only]; Region: COG0388 880070002235 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 880070002236 putative active site [active] 880070002237 catalytic triad [active] 880070002238 putative dimer interface [polypeptide binding]; other site 880070002239 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 880070002240 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 880070002241 active site 880070002242 motif I; other site 880070002243 motif II; other site 880070002244 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 880070002245 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 880070002246 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 880070002247 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 880070002248 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 880070002249 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 880070002250 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 880070002251 active site 880070002252 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 880070002253 GTP cyclohydrolase I; Provisional; Region: PLN03044 880070002254 active site 880070002255 2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase; Region: dhbA_paeA; TIGR04316 880070002256 classical (c) SDRs; Region: SDR_c; cd05233 880070002257 NAD(P) binding site [chemical binding]; other site 880070002258 active site 880070002259 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 880070002260 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 880070002261 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 880070002262 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 880070002263 protein binding site [polypeptide binding]; other site 880070002264 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 880070002265 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 880070002266 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 880070002267 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 880070002268 RIP metalloprotease RseP; Region: TIGR00054 880070002269 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 880070002270 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 880070002271 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 880070002272 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 880070002273 putative substrate binding region [chemical binding]; other site 880070002274 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 880070002275 Found in ATP-dependent protease La (LON); Region: LON; smart00464 880070002276 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 880070002277 Walker A motif; other site 880070002278 ATP binding site [chemical binding]; other site 880070002279 Walker B motif; other site 880070002280 arginine finger; other site 880070002281 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 880070002282 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 880070002283 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 880070002284 Walker A motif; other site 880070002285 ATP binding site [chemical binding]; other site 880070002286 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 880070002287 Walker B motif; other site 880070002288 arginine finger; other site 880070002289 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 880070002290 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 880070002291 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 880070002292 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 880070002293 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 880070002294 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 880070002295 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 880070002296 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 880070002297 catalytic loop [active] 880070002298 iron binding site [ion binding]; other site 880070002299 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 880070002300 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 880070002301 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 880070002302 dimer interface [polypeptide binding]; other site 880070002303 active site 880070002304 CoA binding pocket [chemical binding]; other site 880070002305 elongation factor P; Validated; Region: PRK00529 880070002306 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 880070002307 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 880070002308 RNA binding site [nucleotide binding]; other site 880070002309 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 880070002310 RNA binding site [nucleotide binding]; other site 880070002311 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 880070002312 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 880070002313 carboxyltransferase (CT) interaction site; other site 880070002314 biotinylation site [posttranslational modification]; other site 880070002315 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 880070002316 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 880070002317 ATP-grasp domain; Region: ATP-grasp_4; cl17255 880070002318 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 880070002319 Planctomycete cytochrome C; Region: PSCyt1; pfam07635 880070002320 Protein of unknown function (DUF1549); Region: PSCyt2; pfam07583 880070002321 Protein of unknown function (DUF1553); Region: PSD1; pfam07587 880070002322 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 880070002323 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 880070002324 Planctomycete cytochrome C; Region: PSCyt1; pfam07635 880070002325 Fn3 associated; Region: Fn3_assoc; pfam13287 880070002326 peptide chain release factor 2; Validated; Region: prfB; PRK00578 880070002327 This domain is found in peptide chain release factors; Region: PCRF; smart00937 880070002328 RF-1 domain; Region: RF-1; pfam00472 880070002329 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 880070002330 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 880070002331 homodimer interface [polypeptide binding]; other site 880070002332 substrate-cofactor binding pocket; other site 880070002333 catalytic residue [active] 880070002334 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 880070002335 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 880070002336 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 880070002337 Walker A/P-loop; other site 880070002338 ATP binding site [chemical binding]; other site 880070002339 Q-loop/lid; other site 880070002340 ABC transporter signature motif; other site 880070002341 Walker B; other site 880070002342 D-loop; other site 880070002343 H-loop/switch region; other site 880070002344 Tetratricopeptide repeat; Region: TPR_16; pfam13432 880070002345 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 880070002346 binding surface 880070002347 TPR motif; other site 880070002348 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 880070002349 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 880070002350 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 880070002351 putative acyl-acceptor binding pocket; other site 880070002352 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 880070002353 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_like; cd07021 880070002354 dimer interface [polypeptide binding]; other site 880070002355 active site residues [active] 880070002356 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 880070002357 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 880070002358 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 880070002359 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 880070002360 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 880070002361 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 880070002362 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 880070002363 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 880070002364 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 880070002365 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 880070002366 active site 880070002367 catalytic residues [active] 880070002368 metal binding site [ion binding]; metal-binding site 880070002369 dihydroorotase; Provisional; Region: PRK09237 880070002370 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 880070002371 active site 880070002372 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 880070002373 active site 880070002374 metal binding site [ion binding]; metal-binding site 880070002375 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 880070002376 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 880070002377 ArsC family; Region: ArsC; pfam03960 880070002378 putative catalytic residues [active] 880070002379 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 880070002380 binding surface 880070002381 Tetratricopeptide repeat; Region: TPR_16; pfam13432 880070002382 TPR motif; other site 880070002383 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 880070002384 TPR motif; other site 880070002385 binding surface 880070002386 TPR repeat; Region: TPR_11; pfam13414 880070002387 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 880070002388 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 880070002389 inhibitor-cofactor binding pocket; inhibition site 880070002390 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880070002391 catalytic residue [active] 880070002392 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 880070002393 binding surface 880070002394 TPR motif; other site 880070002395 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 880070002396 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 880070002397 ligand binding site [chemical binding]; other site 880070002398 GMP synthase; Reviewed; Region: guaA; PRK00074 880070002399 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 880070002400 AMP/PPi binding site [chemical binding]; other site 880070002401 candidate oxyanion hole; other site 880070002402 catalytic triad [active] 880070002403 potential glutamine specificity residues [chemical binding]; other site 880070002404 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 880070002405 ATP Binding subdomain [chemical binding]; other site 880070002406 Ligand Binding sites [chemical binding]; other site 880070002407 Dimerization subdomain; other site 880070002408 Transposase; Region: DEDD_Tnp_IS110; pfam01548 880070002409 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 880070002410 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 880070002411 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 880070002412 nucleotide binding site/active site [active] 880070002413 HIT family signature motif; other site 880070002414 catalytic residue [active] 880070002415 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 880070002416 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 880070002417 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 880070002418 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 880070002419 Putative D-isomer specific 2-hydroxyacid dehydrogenases, NAD-binding and catalytic domains; Region: 2-Hacid_dh_14; cd12179 880070002420 putative ligand binding site [chemical binding]; other site 880070002421 putative NAD binding site [chemical binding]; other site 880070002422 catalytic site [active] 880070002423 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 880070002424 MgtE intracellular N domain; Region: MgtE_N; pfam03448 880070002425 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 880070002426 Divalent cation transporter; Region: MgtE; pfam01769 880070002427 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 880070002428 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 880070002429 S-adenosylmethionine binding site [chemical binding]; other site 880070002430 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 880070002431 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 880070002432 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 880070002433 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 880070002434 active site 880070002435 metal binding site [ion binding]; metal-binding site 880070002436 DNA binding site [nucleotide binding] 880070002437 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 880070002438 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 880070002439 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880070002440 Walker A/P-loop; other site 880070002441 ATP binding site [chemical binding]; other site 880070002442 Q-loop/lid; other site 880070002443 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880070002444 ABC transporter signature motif; other site 880070002445 Walker B; other site 880070002446 D-loop; other site 880070002447 H-loop/switch region; other site 880070002448 N-terminal catalytic domain of a thermoactive alpha-amylase from Methanococcus jannaschii and similar proteins; glycoside hydrolase family 57 (GH57); Region: GH57N_MJA1_like; cd10795 880070002449 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 880070002450 putative active site [active] 880070002451 catalytic site [active] 880070002452 glycogen synthase, Corynebacterium family; Region: glgA_Coryne; TIGR02149 880070002453 Starch synthase catalytic domain; Region: Glyco_transf_5; pfam08323 880070002454 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 880070002455 Glycogen debranching enzyme N terminal; Region: GDE_N; pfam12439 880070002456 glycogen debranching enzyme, archaeal type, putative; Region: gde_arch; TIGR01561 880070002457 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 880070002458 dihydroorotase; Reviewed; Region: PRK09236 880070002459 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 880070002460 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 880070002461 active site 880070002462 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 880070002463 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 880070002464 ATP binding site [chemical binding]; other site 880070002465 Mg++ binding site [ion binding]; other site 880070002466 motif III; other site 880070002467 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 880070002468 nucleotide binding region [chemical binding]; other site 880070002469 ATP-binding site [chemical binding]; other site 880070002470 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 880070002471 Putative esterase; Region: Esterase; pfam00756 880070002472 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4947 880070002473 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 880070002474 DinB superfamily; Region: DinB_2; pfam12867 880070002475 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 880070002476 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA; cd03877 880070002477 Peptidase family M28; Region: Peptidase_M28; pfam04389 880070002478 metal binding site [ion binding]; metal-binding site 880070002479 glycine dehydrogenase; Provisional; Region: PRK05367 880070002480 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 880070002481 tetramer interface [polypeptide binding]; other site 880070002482 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880070002483 catalytic residue [active] 880070002484 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 880070002485 tetramer interface [polypeptide binding]; other site 880070002486 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880070002487 catalytic residue [active] 880070002488 fumarate hydratase; Reviewed; Region: fumC; PRK00485 880070002489 Class II fumarases; Region: Fumarase_classII; cd01362 880070002490 active site 880070002491 tetramer interface [polypeptide binding]; other site 880070002492 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 880070002493 homotrimer interaction site [polypeptide binding]; other site 880070002494 putative active site [active] 880070002495 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 880070002496 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 880070002497 active site 880070002498 phosphorylation site [posttranslational modification] 880070002499 intermolecular recognition site; other site 880070002500 dimerization interface [polypeptide binding]; other site 880070002501 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 880070002502 DNA binding site [nucleotide binding] 880070002503 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880070002504 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 880070002505 dimer interface [polypeptide binding]; other site 880070002506 phosphorylation site [posttranslational modification] 880070002507 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 880070002508 ATP binding site [chemical binding]; other site 880070002509 G-X-G motif; other site 880070002510 diaminopimelate decarboxylase; Region: lysA; TIGR01048 880070002511 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 880070002512 active site 880070002513 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 880070002514 substrate binding site [chemical binding]; other site 880070002515 catalytic residues [active] 880070002516 dimer interface [polypeptide binding]; other site 880070002517 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 880070002518 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 880070002519 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 880070002520 active site 880070002521 SAM binding site [chemical binding]; other site 880070002522 homodimer interface [polypeptide binding]; other site 880070002523 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 880070002524 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 880070002525 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 880070002526 HEPN domain; Region: HEPN; cl00824 880070002527 Phosphoinositide 3-kinase family, accessory domain (PIK domain); PIK domain is conserved in PI3 and PI4-kinases. Its role is unclear, but it has been suggested to be involved in substrate presentation. Phosphoinositide 3-kinases play an important role in...; Region: PI3Ka; cl00271 880070002528 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 880070002529 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 880070002530 Active Sites [active] 880070002531 Rrf2 family protein; Region: rrf2_super; TIGR00738 880070002532 Transcriptional regulator; Region: Rrf2; pfam02082 880070002533 heat shock protein 90; Provisional; Region: PRK05218 880070002534 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 880070002535 ATP binding site [chemical binding]; other site 880070002536 Mg2+ binding site [ion binding]; other site 880070002537 G-X-G motif; other site 880070002538 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 880070002539 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 880070002540 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 880070002541 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 880070002542 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 880070002543 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070002544 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 880070002545 dimerization interface [polypeptide binding]; other site 880070002546 putative DNA binding site [nucleotide binding]; other site 880070002547 putative Zn2+ binding site [ion binding]; other site 880070002548 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 880070002549 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 880070002550 motif II; other site 880070002551 Delta(1)-pyrroline-5-carboxylate dehydrogenase, ALDH families 4 and 17; Region: ALDH_F4-17_P5CDH; cd07123 880070002552 delta-1-pyrroline-5-carboxylate dehydrogenase, group 1; Region: D1pyr5carbox1; TIGR01236 880070002553 Glutamate binding site [chemical binding]; other site 880070002554 NAD binding site [chemical binding]; other site 880070002555 catalytic residues [active] 880070002556 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 880070002557 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 880070002558 substrate binding [chemical binding]; other site 880070002559 active site 880070002560 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 880070002561 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 880070002562 ATP binding site [chemical binding]; other site 880070002563 Mg2+ binding site [ion binding]; other site 880070002564 G-X-G motif; other site 880070002565 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 880070002566 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 880070002567 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880070002568 Walker A/P-loop; other site 880070002569 ATP binding site [chemical binding]; other site 880070002570 Q-loop/lid; other site 880070002571 ABC transporter signature motif; other site 880070002572 Walker B; other site 880070002573 D-loop; other site 880070002574 H-loop/switch region; other site 880070002575 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 880070002576 chaperone protein DnaJ; Provisional; Region: PRK14289 880070002577 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 880070002578 HSP70 interaction site [polypeptide binding]; other site 880070002579 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 880070002580 substrate binding site [polypeptide binding]; other site 880070002581 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 880070002582 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 880070002583 dimer interface [polypeptide binding]; other site 880070002584 GrpE; Region: GrpE; pfam01025 880070002585 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 880070002586 dimer interface [polypeptide binding]; other site 880070002587 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 880070002588 GTPase CgtA; Reviewed; Region: obgE; PRK12299 880070002589 GTP1/OBG; Region: GTP1_OBG; pfam01018 880070002590 Obg GTPase; Region: Obg; cd01898 880070002591 G1 box; other site 880070002592 GTP/Mg2+ binding site [chemical binding]; other site 880070002593 Switch I region; other site 880070002594 G2 box; other site 880070002595 G3 box; other site 880070002596 Switch II region; other site 880070002597 G4 box; other site 880070002598 G5 box; other site 880070002599 adenylate kinase; Reviewed; Region: adk; PRK00279 880070002600 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 880070002601 AMP-binding site [chemical binding]; other site 880070002602 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 880070002603 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 880070002604 active site 880070002605 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 880070002606 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 880070002607 metal binding site [ion binding]; metal-binding site 880070002608 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 880070002609 Thrombospondin type 3 repeat; Region: TSP_3; pfam02412 880070002610 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 880070002611 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 880070002612 ligand binding site [chemical binding]; other site 880070002613 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 880070002614 active site 880070002615 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 880070002616 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 880070002617 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 880070002618 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 880070002619 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 880070002620 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880070002621 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 880070002622 DNA binding residues [nucleotide binding] 880070002623 lipoyl synthase; Provisional; Region: PRK05481 880070002624 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 880070002625 FeS/SAM binding site; other site 880070002626 Sporulation related domain; Region: SPOR; cl10051 880070002627 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 880070002628 DHH family; Region: DHH; pfam01368 880070002629 DHHA1 domain; Region: DHHA1; pfam02272 880070002630 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 880070002631 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 880070002632 Walker A/P-loop; other site 880070002633 ATP binding site [chemical binding]; other site 880070002634 Q-loop/lid; other site 880070002635 ABC transporter signature motif; other site 880070002636 Walker B; other site 880070002637 D-loop; other site 880070002638 H-loop/switch region; other site 880070002639 GH3 auxin-responsive promoter; Region: GH3; pfam03321 880070002640 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 880070002641 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 880070002642 homodimer interface [polypeptide binding]; other site 880070002643 metal binding site [ion binding]; metal-binding site 880070002644 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 880070002645 homodimer interface [polypeptide binding]; other site 880070002646 active site 880070002647 putative chemical substrate binding site [chemical binding]; other site 880070002648 metal binding site [ion binding]; metal-binding site 880070002649 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 880070002650 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 880070002651 active site 880070002652 substrate binding site [chemical binding]; other site 880070002653 metal binding site [ion binding]; metal-binding site 880070002654 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 880070002655 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 880070002656 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 880070002657 catalytic residue [active] 880070002658 serine racemase; Region: PLN02970 880070002659 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 880070002660 tetramer interface [polypeptide binding]; other site 880070002661 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880070002662 catalytic residue [active] 880070002663 Peptidase family M23; Region: Peptidase_M23; pfam01551 880070002664 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 880070002665 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like3; cd05668 880070002666 metal binding site [ion binding]; metal-binding site 880070002667 putative dimer interface [polypeptide binding]; other site 880070002668 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 880070002669 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 880070002670 active site 880070002671 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 880070002672 dimer interface [polypeptide binding]; other site 880070002673 substrate binding site [chemical binding]; other site 880070002674 catalytic residues [active] 880070002675 META domain; Region: META; pfam03724 880070002676 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 880070002677 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 880070002678 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 880070002679 putative active site [active] 880070002680 putative substrate binding site [chemical binding]; other site 880070002681 putative cosubstrate binding site; other site 880070002682 catalytic site [active] 880070002683 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 880070002684 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 880070002685 ATP binding site [chemical binding]; other site 880070002686 putative Mg++ binding site [ion binding]; other site 880070002687 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 880070002688 nucleotide binding region [chemical binding]; other site 880070002689 ATP-binding site [chemical binding]; other site 880070002690 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 880070002691 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 880070002692 FtsX-like permease family; Region: FtsX; pfam02687 880070002693 Ribosome-binding factor A; Region: RBFA; pfam02033 880070002694 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 880070002695 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 880070002696 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 880070002697 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 880070002698 dimer interface [polypeptide binding]; other site 880070002699 active site 880070002700 glycine-pyridoxal phosphate binding site [chemical binding]; other site 880070002701 folate binding site [chemical binding]; other site 880070002702 Predicted permeases [General function prediction only]; Region: COG0679 880070002703 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 880070002704 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 880070002705 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 880070002706 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 880070002707 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 880070002708 active site 880070002709 dimerization interface [polypeptide binding]; other site 880070002710 Predicted methyltransferases [General function prediction only]; Region: COG0313 880070002711 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 880070002712 putative SAM binding site [chemical binding]; other site 880070002713 putative homodimer interface [polypeptide binding]; other site 880070002714 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH; cl00942 880070002715 aromatic arch; other site 880070002716 DCoH dimer interaction site [polypeptide binding]; other site 880070002717 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 880070002718 DCoH tetramer interaction site [polypeptide binding]; other site 880070002719 substrate binding site [chemical binding]; other site 880070002720 Protein of unknown function (DUF493); Region: DUF493; pfam04359 880070002721 SurA N-terminal domain; Region: SurA_N_3; cl07813 880070002722 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 880070002723 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 880070002724 Domain of unknown function DUF21; Region: DUF21; pfam01595 880070002725 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 880070002726 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 880070002727 Transporter associated domain; Region: CorC_HlyC; smart01091 880070002728 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 880070002729 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 880070002730 TPR motif; other site 880070002731 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880070002732 Type III pantothenate kinase; Region: Pan_kinase; cl17198 880070002733 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 880070002734 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 880070002735 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 880070002736 NAD(P) binding pocket [chemical binding]; other site 880070002737 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 880070002738 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 880070002739 transmembrane helices; other site 880070002740 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 880070002741 phosphoglyceromutase; Provisional; Region: PRK05434 880070002742 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 880070002743 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 880070002744 dimerization interface [polypeptide binding]; other site 880070002745 active site 880070002746 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 880070002747 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 880070002748 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 880070002749 Walker A/P-loop; other site 880070002750 ATP binding site [chemical binding]; other site 880070002751 Q-loop/lid; other site 880070002752 ABC transporter signature motif; other site 880070002753 Walker B; other site 880070002754 D-loop; other site 880070002755 H-loop/switch region; other site 880070002756 aspartate kinase III; Validated; Region: PRK09084 880070002757 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 880070002758 nucleotide binding site [chemical binding]; other site 880070002759 substrate binding site [chemical binding]; other site 880070002760 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC-like_1; cd04912 880070002761 dimer interface [polypeptide binding]; other site 880070002762 allosteric regulatory binding pocket; other site 880070002763 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 880070002764 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 880070002765 homopentamer interface [polypeptide binding]; other site 880070002766 active site 880070002767 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 880070002768 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 880070002769 binding surface 880070002770 TPR motif; other site 880070002771 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 880070002772 SGNH_hydrolase subfamily. SGNH hydrolases are 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...; Region: SGNH_hydrolase_like_2; cd01834 880070002773 active site 880070002774 catalytic triad [active] 880070002775 oxyanion hole [active] 880070002776 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 880070002777 core domain interface [polypeptide binding]; other site 880070002778 delta subunit interface [polypeptide binding]; other site 880070002779 epsilon subunit interface [polypeptide binding]; other site 880070002780 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 880070002781 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 880070002782 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 880070002783 beta subunit interaction interface [polypeptide binding]; other site 880070002784 Walker A motif; other site 880070002785 ATP binding site [chemical binding]; other site 880070002786 Walker B motif; other site 880070002787 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 880070002788 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 880070002789 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 880070002790 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 880070002791 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 880070002792 ATP synthase subunit C; Region: ATP-synt_C; cl00466 880070002793 ATP synthase A chain; Region: ATP-synt_A; cl00413 880070002794 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 880070002795 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 880070002796 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 880070002797 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 880070002798 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 880070002799 Peptidase family M23; Region: Peptidase_M23; pfam01551 880070002800 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 880070002801 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 880070002802 Transglycosylase; Region: Transgly; pfam00912 880070002803 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 880070002804 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 880070002805 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 880070002806 GIY-YIG motif/motif A; other site 880070002807 active site 880070002808 catalytic site [active] 880070002809 putative DNA binding site [nucleotide binding]; other site 880070002810 metal binding site [ion binding]; metal-binding site 880070002811 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 880070002812 gliding motility associated protien GldN; Region: GldN; TIGR03523 880070002813 gliding motility-associated protein GldM; Region: GldM_gliding; TIGR03517 880070002814 GldM N-terminal domain; Region: GldM_N; pfam12081 880070002815 GldM C-terminal domain; Region: GldM_C; pfam12080 880070002816 gliding motility-associated protein GldL; Region: GldL_gliding; TIGR03513 880070002817 gliding motility-associated lipoprotein GldK; Region: GldK_short; TIGR03529 880070002818 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 880070002819 Bacteroidetes-specific putative membrane protein; Region: Bac_Flav_fam_1; TIGR03519 880070002820 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 880070002821 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 880070002822 active site 880070002823 Domain of unknown function (DUF4271); Region: DUF4271; pfam14093 880070002824 Surface antigen; Region: Bac_surface_Ag; pfam01103 880070002825 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 880070002826 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 880070002827 HemN C-terminal domain; Region: HemN_C; pfam06969 880070002828 Protein of unknown function (DUF721); Region: DUF721; pfam05258 880070002829 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 880070002830 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 880070002831 dimer interface [polypeptide binding]; other site 880070002832 NADP binding site [chemical binding]; other site 880070002833 catalytic residues [active] 880070002834 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 880070002835 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 880070002836 active site 880070002837 dimer interface [polypeptide binding]; other site 880070002838 Fatty acid desaturase; Region: FA_desaturase_2; pfam03405 880070002839 Acyl ACP desaturase, ferritin-like diiron-binding domain; Region: Acyl_ACP_Desat; cd01050 880070002840 homodimer interface [polypeptide binding]; other site 880070002841 putative substrate binding pocket [chemical binding]; other site 880070002842 diiron center [ion binding]; other site 880070002843 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 880070002844 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 880070002845 ATP binding site [chemical binding]; other site 880070002846 putative Mg++ binding site [ion binding]; other site 880070002847 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 880070002848 nucleotide binding region [chemical binding]; other site 880070002849 ATP-binding site [chemical binding]; other site 880070002850 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 880070002851 HRDC domain; Region: HRDC; pfam00570 880070002852 transcription termination factor Rho; Provisional; Region: PRK12678 880070002853 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 880070002854 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 880070002855 RNA binding site [nucleotide binding]; other site 880070002856 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 880070002857 multimer interface [polypeptide binding]; other site 880070002858 Walker A motif; other site 880070002859 ATP binding site [chemical binding]; other site 880070002860 Walker B motif; other site 880070002861 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 880070002862 Domain of unknown function DUF20; Region: UPF0118; pfam01594 880070002863 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 880070002864 Coenzyme A binding pocket [chemical binding]; other site 880070002865 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 880070002866 WYL domain; Region: WYL; pfam13280 880070002867 Uncharacterized conserved protein [Function unknown]; Region: RtcB; COG1690 880070002868 hypothetical protein; Reviewed; Region: PRK09588 880070002869 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 880070002870 active site 880070002871 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070002872 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070002873 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070002874 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 880070002875 starch binding outer membrane protein SusD; Region: SusD; cd08977 880070002876 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 880070002877 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 880070002878 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 880070002879 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; cl12060 880070002880 AP (apurinic/apyrimidinic) site pocket; other site 880070002881 DNA interaction; other site 880070002882 Metal-binding active site; metal-binding site 880070002883 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 880070002884 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 880070002885 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 880070002886 TAP-like protein; Region: Abhydrolase_4; pfam08386 880070002887 Family description; Region: VCBS; pfam13517 880070002888 Family description; Region: VCBS; pfam13517 880070002889 Family description; Region: VCBS; pfam13517 880070002890 Family description; Region: VCBS; pfam13517 880070002891 Family description; Region: VCBS; pfam13517 880070002892 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 880070002893 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 880070002894 active site 880070002895 metal binding site [ion binding]; metal-binding site 880070002896 Uncharacterized conserved protein [Function unknown]; Region: COG3542 880070002897 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070002898 Sulfatase; Region: Sulfatase; cl17466 880070002899 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 880070002900 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 880070002901 putative DNA binding site [nucleotide binding]; other site 880070002902 putative homodimer interface [polypeptide binding]; other site 880070002903 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 880070002904 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 880070002905 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 880070002906 active site 880070002907 DNA binding site [nucleotide binding] 880070002908 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 880070002909 DNA binding site [nucleotide binding] 880070002910 LigD_Pol_like_2: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD, subgroup 2. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required...; Region: LigD_Pol_like_2; cd04865 880070002911 nucleotide binding site [chemical binding]; other site 880070002912 intracellular protease, PfpI family; Region: PfpI; TIGR01382 880070002913 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 880070002914 conserved cys residue [active] 880070002915 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 880070002916 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 880070002917 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 880070002918 sequence-specific DNA binding site [nucleotide binding]; other site 880070002919 salt bridge; other site 880070002920 Tic20-like protein; Region: Tic20; pfam09685 880070002921 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_3; cd09620 880070002922 putative ligand binding site [chemical binding]; other site 880070002923 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 880070002924 active site 880070002925 catalytic triad [active] 880070002926 oxyanion hole [active] 880070002927 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 880070002928 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 880070002929 active site 880070002930 phosphorylation site [posttranslational modification] 880070002931 intermolecular recognition site; other site 880070002932 dimerization interface [polypeptide binding]; other site 880070002933 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 880070002934 DNA binding site [nucleotide binding] 880070002935 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880070002936 HAMP domain; Region: HAMP; pfam00672 880070002937 dimerization interface [polypeptide binding]; other site 880070002938 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 880070002939 dimer interface [polypeptide binding]; other site 880070002940 phosphorylation site [posttranslational modification] 880070002941 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 880070002942 ATP binding site [chemical binding]; other site 880070002943 Mg2+ binding site [ion binding]; other site 880070002944 G-X-G motif; other site 880070002945 Spondin_N; Region: Spond_N; pfam06468 880070002946 PAS fold; Region: PAS_4; pfam08448 880070002947 PAS domain S-box; Region: sensory_box; TIGR00229 880070002948 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 880070002949 putative active site [active] 880070002950 heme pocket [chemical binding]; other site 880070002951 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 880070002952 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 880070002953 putative active site [active] 880070002954 heme pocket [chemical binding]; other site 880070002955 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 880070002956 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 880070002957 putative active site [active] 880070002958 heme pocket [chemical binding]; other site 880070002959 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 880070002960 ATP binding site [chemical binding]; other site 880070002961 Mg2+ binding site [ion binding]; other site 880070002962 G-X-G motif; other site 880070002963 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 880070002964 Predicted helicase [General function prediction only]; Region: COG4889 880070002965 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 880070002966 salt bridge; other site 880070002967 non-specific DNA binding site [nucleotide binding]; other site 880070002968 sequence-specific DNA binding site [nucleotide binding]; other site 880070002969 Protein of unknown function (DUF3036); Region: DUF3036; pfam11234 880070002970 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 880070002971 metal binding site 2 [ion binding]; metal-binding site 880070002972 putative DNA binding helix; other site 880070002973 metal binding site 1 [ion binding]; metal-binding site 880070002974 dimer interface [polypeptide binding]; other site 880070002975 structural Zn2+ binding site [ion binding]; other site 880070002976 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070002977 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 880070002978 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 880070002979 N-terminal plug; other site 880070002980 ligand-binding site [chemical binding]; other site 880070002981 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 880070002982 FecR protein; Region: FecR; pfam04773 880070002983 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070002984 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070002985 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070002986 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 880070002987 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 880070002988 starch binding outer membrane protein SusD; Region: SusD; cd08977 880070002989 starch binding outer membrane protein SusD; Region: SusD; cd08977 880070002990 Helix-turn-helix domain; Region: HTH_18; pfam12833 880070002991 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 880070002992 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 880070002993 dimerization interface [polypeptide binding]; other site 880070002994 putative DNA binding site [nucleotide binding]; other site 880070002995 putative Zn2+ binding site [ion binding]; other site 880070002996 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 880070002997 Low molecular weight phosphatase family; Region: LMWPc; cl00105 880070002998 active site 880070002999 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 880070003000 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 880070003001 Thioredoxin-like; Region: Thioredoxin_7; pfam13899 880070003002 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 880070003003 arsenical-resistance protein; Region: acr3; TIGR00832 880070003004 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 880070003005 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 880070003006 active site 880070003007 metal binding site [ion binding]; metal-binding site 880070003008 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070003009 Sulfatase; Region: Sulfatase; pfam00884 880070003010 Predicted integral membrane protein [Function unknown]; Region: COG5616 880070003011 TPR repeat; Region: TPR_11; pfam13414 880070003012 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 880070003013 binding surface 880070003014 TPR motif; other site 880070003015 TPR repeat; Region: TPR_11; pfam13414 880070003016 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 880070003017 binding surface 880070003018 TPR motif; other site 880070003019 Helix-turn-helix domain; Region: HTH_18; pfam12833 880070003020 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 880070003021 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR1; cd08267 880070003022 putative NAD(P) binding site [chemical binding]; other site 880070003023 Domain of unknown function (DUF1919); Region: DUF1919; cl01628 880070003024 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 880070003025 active site 880070003026 catalytic triad [active] 880070003027 oxyanion hole [active] 880070003028 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 880070003029 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 880070003030 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 880070003031 Prostaglandin dehydrogenases; Region: PGDH; cd05288 880070003032 NAD(P) binding site [chemical binding]; other site 880070003033 substrate binding site [chemical binding]; other site 880070003034 dimer interface [polypeptide binding]; other site 880070003035 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 880070003036 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 880070003037 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 880070003038 short chain dehydrogenase; Provisional; Region: PRK12937 880070003039 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 880070003040 NADP binding site [chemical binding]; other site 880070003041 homodimer interface [polypeptide binding]; other site 880070003042 active site 880070003043 substrate binding site [chemical binding]; other site 880070003044 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070003045 Sulfatase; Region: Sulfatase; pfam00884 880070003046 Predicted esterase [General function prediction only]; Region: COG0627 880070003047 Neutral/alkaline non-lysosomal ceramidase; Region: Ceramidase_alk; cl04712 880070003048 Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are...; Region: Rhamnogalacturan_acetylesterase_like; cd01821 880070003049 active site 880070003050 catalytic triad [active] 880070003051 starch binding outer membrane protein SusD; Region: SusD; cl17845 880070003052 SusD family; Region: SusD; pfam07980 880070003053 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070003054 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070003055 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070003056 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 880070003057 FecR protein; Region: FecR; pfam04773 880070003058 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 880070003059 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880070003060 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 880070003061 DNA binding residues [nucleotide binding] 880070003062 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cd00688 880070003063 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 880070003064 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 880070003065 dinuclear metal binding motif [ion binding]; other site 880070003066 Ferritin-like domain; Region: Ferritin_2; pfam13668 880070003067 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 880070003068 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 880070003069 dimer interface [polypeptide binding]; other site 880070003070 FMN binding site [chemical binding]; other site 880070003071 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 880070003072 MarR family; Region: MarR; pfam01047 880070003073 Predicted membrane protein [Function unknown]; Region: COG4270 880070003074 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 880070003075 Cu(I) binding site [ion binding]; other site 880070003076 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 880070003077 YHYH protein; Region: YHYH; pfam14240 880070003078 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 880070003079 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880070003080 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 880070003081 DNA binding residues [nucleotide binding] 880070003082 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 880070003083 C-terminal binding protein (CtBP), D-isomer-specific 2-hydroxyacid dehydrogenases related repressor; Region: CtBP_dh; cd05299 880070003084 ligand binding site [chemical binding]; other site 880070003085 NAD binding site [chemical binding]; other site 880070003086 catalytic site [active] 880070003087 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 880070003088 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 880070003089 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 880070003090 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 880070003091 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 880070003092 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 880070003093 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 880070003094 RNA binding surface [nucleotide binding]; other site 880070003095 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 880070003096 active site 880070003097 Domain of unknown function (DUF427); Region: DUF427; pfam04248 880070003098 mercuric reductase; Validated; Region: PRK06370 880070003099 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 880070003100 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 880070003101 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 880070003102 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 880070003103 heme-binding site [chemical binding]; other site 880070003104 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 880070003105 glycyl-tRNA synthetase; Provisional; Region: PRK04173 880070003106 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 880070003107 motif 1; other site 880070003108 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3...; Region: GlyRS-like_core; cd00774 880070003109 active site 880070003110 motif 2; other site 880070003111 motif 3; other site 880070003112 GlyRS Glycyl-anticodon binding domain. GlyRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: GlyRS_anticodon; cd00858 880070003113 anticodon binding site; other site 880070003114 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 880070003115 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; cl12060 880070003116 AP (apurinic/apyrimidinic) site pocket; other site 880070003117 DNA interaction; other site 880070003118 Metal-binding active site; metal-binding site 880070003119 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 880070003120 Cytochrome c; Region: Cytochrom_C; pfam00034 880070003121 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 880070003122 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 880070003123 starch binding outer membrane protein SusD; Region: SusD; cd08977 880070003124 SusD family; Region: SusD; pfam07980 880070003125 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070003126 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070003127 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070003128 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 880070003129 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 880070003130 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070003131 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 880070003132 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 880070003133 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 880070003134 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 880070003135 peptide chain release factor 1; Validated; Region: prfA; PRK00591 880070003136 This domain is found in peptide chain release factors; Region: PCRF; smart00937 880070003137 RF-1 domain; Region: RF-1; pfam00472 880070003138 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 880070003139 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 880070003140 gliding motility-associated lipoprotein GldJ; Region: GldJ; TIGR03524 880070003141 gliding motility-associated lipoprotein GldJ; Region: GldJ_short; TIGR03530 880070003142 gliding motility-associated lipoprotein GldJ; Region: GldJ; TIGR03524 880070003143 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 880070003144 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 880070003145 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 880070003146 ATP binding site [chemical binding]; other site 880070003147 putative Mg++ binding site [ion binding]; other site 880070003148 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 880070003149 nucleotide binding region [chemical binding]; other site 880070003150 ATP-binding site [chemical binding]; other site 880070003151 TRCF domain; Region: TRCF; pfam03461 880070003152 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 880070003153 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 880070003154 HflK protein; Region: hflK; TIGR01933 880070003155 HflC protein; Region: hflC; TIGR01932 880070003156 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 880070003157 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 880070003158 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 880070003159 metal binding site 2 [ion binding]; metal-binding site 880070003160 putative DNA binding helix; other site 880070003161 metal binding site 1 [ion binding]; metal-binding site 880070003162 dimer interface [polypeptide binding]; other site 880070003163 structural Zn2+ binding site [ion binding]; other site 880070003164 Aspartyl protease; Region: Asp_protease_2; pfam13650 880070003165 inhibitor binding site; inhibition site 880070003166 catalytic motif [active] 880070003167 Catalytic residue [active] 880070003168 Active site flap [active] 880070003169 Aspartyl protease; Region: Asp_protease_2; pfam13650 880070003170 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 880070003171 PAS fold; Region: PAS_3; pfam08447 880070003172 adaptive-response sensory kinase; Validated; Region: PRK09303 880070003173 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 880070003174 ATP binding site [chemical binding]; other site 880070003175 Mg2+ binding site [ion binding]; other site 880070003176 G-X-G motif; other site 880070003177 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 880070003178 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 880070003179 active site 880070003180 trimer interface [polypeptide binding]; other site 880070003181 allosteric site; other site 880070003182 active site lid [active] 880070003183 hexamer (dimer of trimers) interface [polypeptide binding]; other site 880070003184 Predicted membrane protein [Function unknown]; Region: COG2860 880070003185 UPF0126 domain; Region: UPF0126; pfam03458 880070003186 UPF0126 domain; Region: UPF0126; pfam03458 880070003187 Methyltransferase domain; Region: Methyltransf_23; pfam13489 880070003188 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 880070003189 S-adenosylmethionine binding site [chemical binding]; other site 880070003190 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 880070003191 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070003192 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 880070003193 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 880070003194 putative di-iron ligands [ion binding]; other site 880070003195 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 880070003196 LytB protein; Region: LYTB; cl00507 880070003197 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 880070003198 active site lid residues [active] 880070003199 substrate binding pocket [chemical binding]; other site 880070003200 catalytic residues [active] 880070003201 substrate-Mg2+ binding site; other site 880070003202 aspartate-rich region 1; other site 880070003203 aspartate-rich region 2; other site 880070003204 phytoene desaturase; Region: crtI_fam; TIGR02734 880070003205 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 880070003206 RNA polymerase sigma factor; Provisional; Region: PRK12547 880070003207 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880070003208 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 880070003209 DNA binding residues [nucleotide binding] 880070003210 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 880070003211 active site 880070003212 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 880070003213 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme D-Threonine Aldolase; Region: PLPDE_III_D-TA; cd06821 880070003214 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 880070003215 dimer interface [polypeptide binding]; other site 880070003216 active site 880070003217 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 880070003218 substrate binding site [chemical binding]; other site 880070003219 catalytic residue [active] 880070003220 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 880070003221 homotrimer interaction site [polypeptide binding]; other site 880070003222 putative active site [active] 880070003223 GntP family permease; Region: GntP_permease; pfam02447 880070003224 fructuronate transporter; Provisional; Region: PRK10034; cl15264 880070003225 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 880070003226 Major Facilitator Superfamily; Region: MFS_1; pfam07690 880070003227 putative substrate translocation pore; other site 880070003228 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070003229 Sulfatase; Region: Sulfatase; pfam00884 880070003230 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 880070003231 excinuclease ABC subunit B; Provisional; Region: PRK05298 880070003232 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 880070003233 ATP binding site [chemical binding]; other site 880070003234 Protein of unknown function (DUF419); Region: DUF419; cl15265 880070003235 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 880070003236 nucleotide binding region [chemical binding]; other site 880070003237 ATP-binding site [chemical binding]; other site 880070003238 Ultra-violet resistance protein B; Region: UvrB; pfam12344 880070003239 UvrB/uvrC motif; Region: UVR; pfam02151 880070003240 Divergent AAA domain; Region: AAA_4; pfam04326 880070003241 RecX family; Region: RecX; pfam02631 880070003242 triosephosphate isomerase; Provisional; Region: PRK14567 880070003243 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 880070003244 substrate binding site [chemical binding]; other site 880070003245 dimer interface [polypeptide binding]; other site 880070003246 catalytic triad [active] 880070003247 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 880070003248 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 880070003249 S-adenosylmethionine binding site [chemical binding]; other site 880070003250 Domain of unknown function (DUF4270); Region: DUF4270; pfam14092 880070003251 Starch synthase catalytic domain; Region: Glyco_transf_5; pfam08323 880070003252 pantoate--beta-alanine ligase; Region: panC; TIGR00018 880070003253 Pantoate-beta-alanine ligase; Region: PanC; cd00560 880070003254 active site 880070003255 ATP-binding site [chemical binding]; other site 880070003256 pantoate-binding site; other site 880070003257 HXXH motif; other site 880070003258 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 880070003259 tetramerization interface [polypeptide binding]; other site 880070003260 active site 880070003261 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 880070003262 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 880070003263 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 880070003264 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 880070003265 FAD binding site [chemical binding]; other site 880070003266 homotetramer interface [polypeptide binding]; other site 880070003267 substrate binding pocket [chemical binding]; other site 880070003268 catalytic base [active] 880070003269 Helix-turn-helix domain; Region: HTH_18; pfam12833 880070003270 geranylgeranylglyceryl phosphate synthase-like protein; Reviewed; Region: PRK04169 880070003271 phosphate binding site [ion binding]; other site 880070003272 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 880070003273 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 880070003274 catalytic residues [active] 880070003275 phytoene desaturase; Region: crtI_fam; TIGR02734 880070003276 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 880070003277 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 880070003278 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 880070003279 substrate binding pocket [chemical binding]; other site 880070003280 membrane-bound complex binding site; other site 880070003281 hinge residues; other site 880070003282 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 880070003283 N-acetyl-D-glucosamine binding site [chemical binding]; other site 880070003284 catalytic residue [active] 880070003285 Outer membrane efflux protein; Region: OEP; pfam02321 880070003286 Outer membrane efflux protein; Region: OEP; pfam02321 880070003287 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 880070003288 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 880070003289 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 880070003290 HlyD family secretion protein; Region: HlyD_3; pfam13437 880070003291 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 880070003292 YhhN-like protein; Region: YhhN; pfam07947 880070003293 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 880070003294 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 880070003295 dimer interface [polypeptide binding]; other site 880070003296 anticodon binding site; other site 880070003297 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 880070003298 homodimer interface [polypeptide binding]; other site 880070003299 motif 1; other site 880070003300 active site 880070003301 motif 2; other site 880070003302 GAD domain; Region: GAD; pfam02938 880070003303 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 880070003304 motif 3; other site 880070003305 putative peptidase; Provisional; Region: PRK11649 880070003306 Peptidase family M23; Region: Peptidase_M23; pfam01551 880070003307 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 880070003308 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 880070003309 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 880070003310 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 880070003311 substrate binding site; other site 880070003312 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 880070003313 extended (e) SDRs; Region: SDR_e; cd08946 880070003314 NAD(P) binding site [chemical binding]; other site 880070003315 active site 880070003316 substrate binding site [chemical binding]; other site 880070003317 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 880070003318 Shikimate / quinate 5-dehydrogenase; Region: Shikimate_DH; pfam01488 880070003319 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 880070003320 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 880070003321 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880070003322 NAD(P) binding site [chemical binding]; other site 880070003323 active site 880070003324 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); Region: MPN_like; cd08070 880070003325 MPN+ (JAMM) motif; other site 880070003326 Zinc-binding site [ion binding]; other site 880070003327 Ubiquitin-like proteins; Region: UBQ; cl00155 880070003328 charged pocket; other site 880070003329 hydrophobic patch; other site 880070003330 hypothetical protein; Validated; Region: PRK07411 880070003331 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 880070003332 ATP binding site [chemical binding]; other site 880070003333 substrate interface [chemical binding]; other site 880070003334 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 880070003335 active site residue [active] 880070003336 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 880070003337 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 880070003338 ligand binding site [chemical binding]; other site 880070003339 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 880070003340 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 880070003341 ligand binding site [chemical binding]; other site 880070003342 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 880070003343 Domain of unknown function DUF11; Region: DUF11; pfam01345 880070003344 Domain of unknown function DUF11; Region: DUF11; pfam01345 880070003345 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 880070003346 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 880070003347 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 880070003348 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 880070003349 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880070003350 Protein of unknown function (DUF2753); Region: DUF2753; pfam10952 880070003351 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 880070003352 motif I; other site 880070003353 active site 880070003354 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 880070003355 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 880070003356 Uncharacterized protein conserved in bacteria (DUF2317); Region: DUF2317; pfam10079 880070003357 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4365 880070003358 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 880070003359 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 880070003360 metal-binding site [ion binding] 880070003361 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 880070003362 Soluble P-type ATPase [General function prediction only]; Region: COG4087 880070003363 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 880070003364 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 880070003365 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 880070003366 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 880070003367 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 880070003368 homotrimer interaction site [polypeptide binding]; other site 880070003369 zinc binding site [ion binding]; other site 880070003370 CDP-binding sites; other site 880070003371 S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_30; cl17711 880070003372 Family description; Region: VCBS; pfam13517 880070003373 Family description; Region: VCBS; pfam13517 880070003374 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 880070003375 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 880070003376 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 880070003377 substrate binding site [chemical binding]; other site 880070003378 ATP binding site [chemical binding]; other site 880070003379 ORF059 IMV protein VP55; Provisional; Region: PHA02688 880070003380 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 880070003381 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 880070003382 Dehydroquinate synthase (DHQS)-like. DHQS catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS-like2; cd08198 880070003383 active site 880070003384 metal binding site [ion binding]; metal-binding site 880070003385 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; COG0382 880070003386 UbiA prenyltransferase family; Region: UbiA; pfam01040 880070003387 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 880070003388 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 880070003389 active site 880070003390 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 880070003391 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 880070003392 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 880070003393 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 880070003394 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 880070003395 Aldose 1-epimerase, similar to Escherichia coli c4013; Region: Aldose_epim_Ec_c4013; cd09023 880070003396 active site 880070003397 catalytic residues [active] 880070003398 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 880070003399 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 880070003400 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 880070003401 Cytochrome c; Region: Cytochrom_C; pfam00034 880070003402 starch binding outer membrane protein SusD; Region: SusD; cd08977 880070003403 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 880070003404 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070003405 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070003406 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070003407 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 880070003408 starch binding outer membrane protein SusD; Region: SusD; cd08977 880070003409 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070003410 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070003411 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070003412 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 880070003413 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 880070003414 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 880070003415 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 880070003416 RimM N-terminal domain; Region: RimM; pfam01782 880070003417 PRC-barrel domain; Region: PRC; pfam05239 880070003418 30S ribosomal protein S16; Provisional; Region: rpsP; PRK14521 880070003419 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 880070003420 BCCT family transporter; Region: BCCT; pfam02028 880070003421 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 880070003422 Ligand Binding Site [chemical binding]; other site 880070003423 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 880070003424 Ligand Binding Site [chemical binding]; other site 880070003425 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 880070003426 active site 880070003427 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 880070003428 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 880070003429 Penicillinase repressor; Region: Pencillinase_R; pfam03965 880070003430 NRDE protein; Region: NRDE; cl01315 880070003431 integron integrase; Region: integrase_gron; TIGR02249 880070003432 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 880070003433 active site 880070003434 DNA binding site [nucleotide binding] 880070003435 Int/Topo IB signature motif; other site 880070003436 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 880070003437 Putative transposase; Region: Y2_Tnp; pfam04986 880070003438 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 880070003439 active site 880070003440 NTP binding site [chemical binding]; other site 880070003441 metal binding triad [ion binding]; metal-binding site 880070003442 antibiotic binding site [chemical binding]; other site 880070003443 Protein of unknown function DUF86; Region: DUF86; cl01031 880070003444 Beta-lactamase; Region: Beta-lactamase; pfam00144 880070003445 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 880070003446 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 880070003447 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 880070003448 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 880070003449 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 880070003450 Coenzyme A binding pocket [chemical binding]; other site 880070003451 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 880070003452 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 880070003453 ligand binding site [chemical binding]; other site 880070003454 DoxX-like family; Region: DoxX_2; pfam13564 880070003455 Pirin; Region: Pirin; pfam02678 880070003456 Pirin-related protein [General function prediction only]; Region: COG1741 880070003457 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 880070003458 Pirin; Region: Pirin; pfam02678 880070003459 Pirin-related protein [General function prediction only]; Region: COG1741 880070003460 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 880070003461 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 880070003462 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 880070003463 catalytic residues [active] 880070003464 Helix-turn-helix domain; Region: HTH_18; pfam12833 880070003465 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 880070003466 Major Facilitator Superfamily; Region: MFS_1; pfam07690 880070003467 putative substrate translocation pore; other site 880070003468 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 880070003469 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 880070003470 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 880070003471 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 880070003472 polyphosphate kinase; Provisional; Region: PRK05443 880070003473 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 880070003474 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 880070003475 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 880070003476 putative active site [active] 880070003477 catalytic site [active] 880070003478 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 880070003479 putative active site [active] 880070003480 catalytic site [active] 880070003481 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 880070003482 cyclase homology domain; Region: CHD; cd07302 880070003483 nucleotidyl binding site; other site 880070003484 metal binding site [ion binding]; metal-binding site 880070003485 dimer interface [polypeptide binding]; other site 880070003486 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 880070003487 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 880070003488 active site 880070003489 metal binding site [ion binding]; metal-binding site 880070003490 Surface antigen; Region: Bac_surface_Ag; pfam01103 880070003491 SdiA-regulated; Region: SdiA-regulated; cd09971 880070003492 putative active site [active] 880070003493 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 880070003494 Zn2+ binding site [ion binding]; other site 880070003495 Mg2+ binding site [ion binding]; other site 880070003496 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 880070003497 Mechanosensitive ion channel; Region: MS_channel; pfam00924 880070003498 EamA-like transporter family; Region: EamA; pfam00892 880070003499 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 880070003500 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 880070003501 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 880070003502 FMN binding site [chemical binding]; other site 880070003503 active site 880070003504 catalytic residues [active] 880070003505 substrate binding site [chemical binding]; other site 880070003506 CAAX protease self-immunity; Region: Abi; pfam02517 880070003507 CAAX protease self-immunity; Region: Abi; pfam02517 880070003508 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 880070003509 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 880070003510 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 880070003511 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 880070003512 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 880070003513 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 880070003514 active site 880070003515 phosphorylation site [posttranslational modification] 880070003516 intermolecular recognition site; other site 880070003517 dimerization interface [polypeptide binding]; other site 880070003518 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 880070003519 DNA binding residues [nucleotide binding] 880070003520 dimerization interface [polypeptide binding]; other site 880070003521 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 880070003522 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 880070003523 ATP binding site [chemical binding]; other site 880070003524 Mg2+ binding site [ion binding]; other site 880070003525 G-X-G motif; other site 880070003526 Ion transport protein; Region: Ion_trans; pfam00520 880070003527 Ion channel; Region: Ion_trans_2; pfam07885 880070003528 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 880070003529 Transposase; Region: DEDD_Tnp_IS110; pfam01548 880070003530 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 880070003531 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 880070003532 Transposase; Region: DEDD_Tnp_IS110; pfam01548 880070003533 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 880070003534 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 880070003535 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 880070003536 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 880070003537 active site 880070003538 motif I; other site 880070003539 motif II; other site 880070003540 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 880070003541 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 880070003542 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 880070003543 RNA binding surface [nucleotide binding]; other site 880070003544 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 880070003545 probable active site [active] 880070003546 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 880070003547 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 880070003548 ATP-grasp domain; Region: ATP-grasp_4; cl17255 880070003549 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 880070003550 C-terminal domain of CHU protein family; Region: CHU_C; cl17875 880070003551 Peptide-N-glycosidase F, N terminal; Region: N-glycanase_N; pfam09112 880070003552 Peptide-N-glycosidase F, C terminal; Region: N-glycanase_C; pfam09113 880070003553 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 880070003554 Planctomycete cytochrome C; Region: PSCyt1; pfam07635 880070003555 Protein of unknown function (DUF1549); Region: PSCyt2; pfam07583 880070003556 Protein of unknown function (DUF1553); Region: PSD1; pfam07587 880070003557 Planctomycete cytochrome C; Region: PSCyt1; pfam07635 880070003558 Protein of unknown function (DUF1549); Region: PSCyt2; pfam07583 880070003559 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 880070003560 metal binding site [ion binding]; metal-binding site 880070003561 ligand binding site [chemical binding]; other site 880070003562 Protein of unknown function (DUF1553); Region: PSD1; pfam07587 880070003563 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 880070003564 Amidohydrolase; Region: Amidohydro_2; pfam04909 880070003565 HD domain; Region: HD_4; pfam13328 880070003566 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 880070003567 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 880070003568 putative substrate translocation pore; other site 880070003569 hypothetical protein; Provisional; Region: PRK04164 880070003570 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 880070003571 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 880070003572 Transglycosylase; Region: Transgly; cl17702 880070003573 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 880070003574 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 880070003575 HflX GTPase family; Region: HflX; cd01878 880070003576 G1 box; other site 880070003577 GTP/Mg2+ binding site [chemical binding]; other site 880070003578 Switch I region; other site 880070003579 G2 box; other site 880070003580 G3 box; other site 880070003581 Switch II region; other site 880070003582 G4 box; other site 880070003583 G5 box; other site 880070003584 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 880070003585 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 880070003586 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880070003587 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 880070003588 NAD(P) binding site [chemical binding]; other site 880070003589 active site 880070003590 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 880070003591 binding surface 880070003592 TPR motif; other site 880070003593 TPR repeat; Region: TPR_11; pfam13414 880070003594 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 880070003595 binding surface 880070003596 Tetratricopeptide repeat; Region: TPR_16; pfam13432 880070003597 TPR motif; other site 880070003598 TPR repeat; Region: TPR_11; pfam13414 880070003599 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 880070003600 binding surface 880070003601 TPR repeat; Region: TPR_11; pfam13414 880070003602 TPR motif; other site 880070003603 Tetratricopeptide repeat; Region: TPR_16; pfam13432 880070003604 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 880070003605 binding surface 880070003606 TPR motif; other site 880070003607 (2R)-phospho-3-sulfolactate synthase (ComA); Region: ComA; pfam02679 880070003608 Domain of unknown function (DUF368); Region: DUF368; pfam04018 880070003609 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 880070003610 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 880070003611 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 880070003612 shikimate binding site; other site 880070003613 NAD(P) binding site [chemical binding]; other site 880070003614 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 880070003615 active site 880070003616 Plant invertase/pectin methylesterase inhibitor; Region: PMEI; cl04375 880070003617 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 880070003618 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070003619 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 880070003620 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 880070003621 Fatty acid desaturase; Region: FA_desaturase; pfam00487 880070003622 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 880070003623 putative di-iron ligands [ion binding]; other site 880070003624 gliding motility-associated lipoprotein GldD; Region: GldD_lipo; TIGR03512 880070003625 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 880070003626 putative FMN binding site [chemical binding]; other site 880070003627 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070003628 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 880070003629 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 880070003630 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 880070003631 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 880070003632 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 880070003633 lipoprotein signal peptidase; Provisional; Region: PRK14788 880070003634 lipoprotein signal peptidase; Provisional; Region: PRK14787 880070003635 isoleucyl-tRNA synthetase; Region: ileS; TIGR00392 880070003636 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 880070003637 active site 880070003638 HIGH motif; other site 880070003639 nucleotide binding site [chemical binding]; other site 880070003640 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 880070003641 active site 880070003642 KMSKS motif; other site 880070003643 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 880070003644 tRNA binding surface [nucleotide binding]; other site 880070003645 anticodon binding site; other site 880070003646 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 880070003647 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 880070003648 Zn2+ binding site [ion binding]; other site 880070003649 Mg2+ binding site [ion binding]; other site 880070003650 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 880070003651 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 880070003652 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 880070003653 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 880070003654 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 880070003655 HlyD family secretion protein; Region: HlyD_3; pfam13437 880070003656 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_3; cd09620 880070003657 putative ligand binding site [chemical binding]; other site 880070003658 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 880070003659 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 880070003660 catalytic motif [active] 880070003661 Zn binding site [ion binding]; other site 880070003662 RibD C-terminal domain; Region: RibD_C; pfam01872 880070003663 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 880070003664 GAF domain; Region: GAF_2; pfam13185 880070003665 PHD-finger; Region: PHD; cl17445 880070003666 Transcriptional regulators [Transcription]; Region: MarR; COG1846 880070003667 MarR family; Region: MarR_2; pfam12802 880070003668 Fic/DOC family; Region: Fic; pfam02661 880070003669 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 880070003670 active site 880070003671 catalytic triad [active] 880070003672 oxyanion hole [active] 880070003673 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 880070003674 GAF domain; Region: GAF; pfam01590 880070003675 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880070003676 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 880070003677 dimer interface [polypeptide binding]; other site 880070003678 phosphorylation site [posttranslational modification] 880070003679 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 880070003680 ATP binding site [chemical binding]; other site 880070003681 Mg2+ binding site [ion binding]; other site 880070003682 G-X-G motif; other site 880070003683 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 880070003684 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 880070003685 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 880070003686 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 880070003687 ligand binding site [chemical binding]; other site 880070003688 flexible hinge region; other site 880070003689 Protein of unknown function (DUF1569); Region: DUF1569; pfam07606 880070003690 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 880070003691 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 880070003692 trimer interface [polypeptide binding]; other site 880070003693 active site 880070003694 substrate binding site [chemical binding]; other site 880070003695 CoA binding site [chemical binding]; other site 880070003696 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 880070003697 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 880070003698 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 880070003699 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 880070003700 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 880070003701 active site 880070003702 phosphorylation site [posttranslational modification] 880070003703 intermolecular recognition site; other site 880070003704 dimerization interface [polypeptide binding]; other site 880070003705 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 880070003706 DNA binding site [nucleotide binding] 880070003707 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 880070003708 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 880070003709 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 880070003710 ATP binding site [chemical binding]; other site 880070003711 Mg2+ binding site [ion binding]; other site 880070003712 G-X-G motif; other site 880070003713 Outer membrane efflux protein; Region: OEP; pfam02321 880070003714 Outer membrane efflux protein; Region: OEP; pfam02321 880070003715 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 880070003716 HlyD family secretion protein; Region: HlyD_3; pfam13437 880070003717 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 880070003718 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 880070003719 Coenzyme A binding pocket [chemical binding]; other site 880070003720 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 880070003721 RibD C-terminal domain; Region: RibD_C; cl17279 880070003722 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 880070003723 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 880070003724 active site 880070003725 dimerization interface [polypeptide binding]; other site 880070003726 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 880070003727 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 880070003728 ATP-binding site [chemical binding]; other site 880070003729 Sugar specificity; other site 880070003730 Pyrimidine base specificity; other site 880070003731 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 880070003732 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 880070003733 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 880070003734 Protein export membrane protein; Region: SecD_SecF; pfam02355 880070003735 S-adenosylmethionine synthetase; Validated; Region: PRK05250 880070003736 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 880070003737 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 880070003738 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 880070003739 Protein of unknown function (DUF1572); Region: DUF1572; pfam07609 880070003740 DinB superfamily; Region: DinB_2; pfam12867 880070003741 EcsC protein family; Region: EcsC; pfam12787 880070003742 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 880070003743 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 880070003744 Family description; Region: VCBS; pfam13517 880070003745 Family description; Region: VCBS; pfam13517 880070003746 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 880070003747 Response regulator receiver domain; Region: Response_reg; pfam00072 880070003748 active site 880070003749 phosphorylation site [posttranslational modification] 880070003750 intermolecular recognition site; other site 880070003751 dimerization interface [polypeptide binding]; other site 880070003752 Penicillinase repressor; Region: Pencillinase_R; pfam03965 880070003753 Antirepressor regulating drug resistance, predicted signal transduction N-terminal membrane component [Transcription / Signal transduction mechanisms]; Region: MecR1; COG4219 880070003754 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 880070003755 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 880070003756 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 880070003757 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 880070003758 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 880070003759 Major Facilitator Superfamily; Region: MFS_1; pfam07690 880070003760 putative substrate translocation pore; other site 880070003761 helicase 45; Provisional; Region: PTZ00424 880070003762 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 880070003763 ATP binding site [chemical binding]; other site 880070003764 Mg++ binding site [ion binding]; other site 880070003765 motif III; other site 880070003766 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 880070003767 nucleotide binding region [chemical binding]; other site 880070003768 ATP-binding site [chemical binding]; other site 880070003769 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 880070003770 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 880070003771 Walker A/P-loop; other site 880070003772 ATP binding site [chemical binding]; other site 880070003773 Q-loop/lid; other site 880070003774 ABC transporter signature motif; other site 880070003775 Walker B; other site 880070003776 D-loop; other site 880070003777 H-loop/switch region; other site 880070003778 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 880070003779 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 880070003780 dimer interface [polypeptide binding]; other site 880070003781 conserved gate region; other site 880070003782 putative PBP binding loops; other site 880070003783 ABC-ATPase subunit interface; other site 880070003784 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 880070003785 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 880070003786 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 880070003787 Beta-lactamase; Region: Beta-lactamase; pfam00144 880070003788 MepB protein; Region: MepB; cl01985 880070003789 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 880070003790 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 880070003791 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 880070003792 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 880070003793 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 880070003794 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 880070003795 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 880070003796 catalytic residues [active] 880070003797 Uncharacterized conserved protein [Function unknown]; Region: COG2128 880070003798 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 880070003799 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 880070003800 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 880070003801 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 880070003802 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 880070003803 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 880070003804 Na binding site [ion binding]; other site 880070003805 YHYH protein; Region: YHYH; pfam14240 880070003806 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 880070003807 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880070003808 NAD(P) binding site [chemical binding]; other site 880070003809 active site 880070003810 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880070003811 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 880070003812 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 880070003813 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 880070003814 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 880070003815 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 880070003816 NAD(P) binding site [chemical binding]; other site 880070003817 putative active site [active] 880070003818 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 880070003819 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 880070003820 ligand binding site [chemical binding]; other site 880070003821 flexible hinge region; other site 880070003822 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 880070003823 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 880070003824 sequence-specific DNA binding site [nucleotide binding]; other site 880070003825 salt bridge; other site 880070003826 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 880070003827 GspL periplasmic domain; Region: GspL_C; cl14909 880070003828 Cupin domain; Region: Cupin_2; pfam07883 880070003829 short chain dehydrogenase; Provisional; Region: PRK12937 880070003830 Lin1944 and related proteins, classical (c) SDRs; Region: Lin1944_like_SDR_c; cd11731 880070003831 putative NAD(P) binding site [chemical binding]; other site 880070003832 homodimer interface [polypeptide binding]; other site 880070003833 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 880070003834 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 880070003835 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 880070003836 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 880070003837 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 880070003838 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 880070003839 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 880070003840 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 880070003841 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 880070003842 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 880070003843 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 880070003844 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 880070003845 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 880070003846 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 880070003847 putative active site [active] 880070003848 putative NTP binding site [chemical binding]; other site 880070003849 putative nucleic acid binding site [nucleotide binding]; other site 880070003850 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 880070003851 endonuclease subunit; Provisional; Region: 46; PHA02562 880070003852 Domain of unknown function (DUF4297); Region: DUF4297; pfam14130 880070003853 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 880070003854 Putative transposase; Region: Y2_Tnp; pfam04986 880070003855 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 880070003856 bacillithiol system protein YtxJ; Region: B_thiol_YtxJ; TIGR04019 880070003857 Domain of unknown function (DUF4403); Region: DUF4403; pfam14356 880070003858 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 880070003859 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 880070003860 active site 880070003861 catalytic site [active] 880070003862 substrate binding site [chemical binding]; other site 880070003863 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 880070003864 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 880070003865 ligand binding site [chemical binding]; other site 880070003866 flexible hinge region; other site 880070003867 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 880070003868 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 880070003869 metal binding triad; other site 880070003870 acetyl-CoA synthetase; Provisional; Region: PRK00174 880070003871 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 880070003872 active site 880070003873 CoA binding site [chemical binding]; other site 880070003874 acyl-activating enzyme (AAE) consensus motif; other site 880070003875 AMP binding site [chemical binding]; other site 880070003876 acetate binding site [chemical binding]; other site 880070003877 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 880070003878 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 880070003879 Na binding site [ion binding]; other site 880070003880 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 880070003881 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 880070003882 AAA domain; Region: AAA_28; pfam13521 880070003883 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 880070003884 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 880070003885 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 880070003886 dihydroxy-acid dehydratase; Validated; Region: PRK06131 880070003887 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 880070003888 classical (c) SDRs; Region: SDR_c; cd05233 880070003889 NAD(P) binding site [chemical binding]; other site 880070003890 active site 880070003891 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 880070003892 active site 880070003893 YHYH protein; Region: YHYH; pfam14240 880070003894 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 880070003895 Beta-lactamase; Region: Beta-lactamase; pfam00144 880070003896 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 880070003897 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 880070003898 probable addiction module antidote protein; Region: dnstrm_HI1420; TIGR02684 880070003899 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070003900 Sulfatase; Region: Sulfatase; pfam00884 880070003901 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 880070003902 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 880070003903 Coenzyme A binding pocket [chemical binding]; other site 880070003904 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 880070003905 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 880070003906 short chain dehydrogenase; Validated; Region: PRK08324 880070003907 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; smart01007 880070003908 active site 880070003909 Zn2+ binding site [ion binding]; other site 880070003910 intersubunit interface [polypeptide binding]; other site 880070003911 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880070003912 NAD(P) binding site [chemical binding]; other site 880070003913 active site 880070003914 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952; cl17900 880070003915 L-rhamnose catabolism isomerase, Pseudomonas stutzeri subtype; Region: L_rham_iso_rhiz; TIGR02629 880070003916 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 880070003917 nucleotide binding site [chemical binding]; other site 880070003918 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 880070003919 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 880070003920 Protein of unknown function (DUF4038); Region: DUF4038; pfam13204 880070003921 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 880070003922 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 880070003923 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 880070003924 methionine aminotransferase; Validated; Region: PRK09082 880070003925 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 880070003926 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880070003927 homodimer interface [polypeptide binding]; other site 880070003928 catalytic residue [active] 880070003929 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 880070003930 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; cl12060 880070003931 DNA interaction; other site 880070003932 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 880070003933 putative catalytic site [active] 880070003934 putative phosphate binding site [ion binding]; other site 880070003935 putative metal binding site [ion binding]; other site 880070003936 AAA domain; Region: AAA_30; pfam13604 880070003937 PIF1-like helicase; Region: PIF1; pfam05970 880070003938 Family description; Region: UvrD_C_2; pfam13538 880070003939 PA14 domain; Region: PA14; cl08459 880070003940 PA14 domain; Region: PA14; cl08459 880070003941 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880070003942 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 880070003943 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 880070003944 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 880070003945 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880070003946 Walker A/P-loop; other site 880070003947 ATP binding site [chemical binding]; other site 880070003948 Q-loop/lid; other site 880070003949 ABC transporter signature motif; other site 880070003950 Walker B; other site 880070003951 D-loop; other site 880070003952 H-loop/switch region; other site 880070003953 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 880070003954 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 880070003955 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 880070003956 Uncharacterized conserved protein [Function unknown]; Region: COG1262 880070003957 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 880070003958 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 880070003959 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 880070003960 YcxB-like protein; Region: YcxB; pfam14317 880070003961 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 880070003962 metal binding site 2 [ion binding]; metal-binding site 880070003963 putative DNA binding helix; other site 880070003964 metal binding site 1 [ion binding]; metal-binding site 880070003965 dimer interface [polypeptide binding]; other site 880070003966 structural Zn2+ binding site [ion binding]; other site 880070003967 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u1; cd11477 880070003968 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 880070003969 Na binding site [ion binding]; other site 880070003970 Phosphotransferase enzyme family; Region: APH; pfam01636 880070003971 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 880070003972 active site 880070003973 ATP binding site [chemical binding]; other site 880070003974 substrate binding site [chemical binding]; other site 880070003975 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 880070003976 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 880070003977 generic binding surface II; other site 880070003978 ssDNA binding site; other site 880070003979 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 880070003980 ATP binding site [chemical binding]; other site 880070003981 putative Mg++ binding site [ion binding]; other site 880070003982 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 880070003983 nucleotide binding region [chemical binding]; other site 880070003984 ATP-binding site [chemical binding]; other site 880070003985 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 880070003986 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 880070003987 ligand binding site [chemical binding]; other site 880070003988 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 880070003989 pseudouridine synthase; Region: TIGR00093 880070003990 active site 880070003991 MoxR-like ATPases [General function prediction only]; Region: COG0714 880070003992 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 880070003993 Walker A motif; other site 880070003994 ATP binding site [chemical binding]; other site 880070003995 Walker B motif; other site 880070003996 arginine finger; other site 880070003997 Histidine kinase; Region: His_kinase; pfam06580 880070003998 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 880070003999 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 880070004000 active site 880070004001 phosphorylation site [posttranslational modification] 880070004002 intermolecular recognition site; other site 880070004003 dimerization interface [polypeptide binding]; other site 880070004004 LytTr DNA-binding domain; Region: LytTR; smart00850 880070004005 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 880070004006 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 880070004007 active site 880070004008 phosphorylation site [posttranslational modification] 880070004009 intermolecular recognition site; other site 880070004010 dimerization interface [polypeptide binding]; other site 880070004011 Hypothetical protein Yopt; Region: Yopt; pfam09467 880070004012 LytTr DNA-binding domain; Region: LytTR; smart00850 880070004013 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 880070004014 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 880070004015 putative active site [active] 880070004016 PhoH-like protein; Region: PhoH; pfam02562 880070004017 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Deinococcus radiodurans DR2231 protein and its bacterial homologs; Region: NTP-PPase_DR2231_like; cd11530 880070004018 metal binding site [ion binding]; metal-binding site 880070004019 Helix-turn-helix domain; Region: HTH_18; pfam12833 880070004020 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 880070004021 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl17483 880070004022 2'-deoxycytidine 5'-triphosphate deaminase (DCD); Region: DCD; pfam06559 880070004023 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 880070004024 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 880070004025 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 880070004026 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 880070004027 Beta-lactamase; Region: Beta-lactamase; pfam00144 880070004028 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 880070004029 nucleotide binding site [chemical binding]; other site 880070004030 Type III pantothenate kinase; Region: Pan_kinase; cl17198 880070004031 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 880070004032 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 880070004033 Coenzyme A binding pocket [chemical binding]; other site 880070004034 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 880070004035 metal ion-dependent adhesion site (MIDAS); other site 880070004036 Mg-chelatase subunit ChlI [Coenzyme metabolism]; Region: ChlI; COG1239 880070004037 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 880070004038 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 880070004039 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 880070004040 DinB family; Region: DinB; cl17821 880070004041 DinB superfamily; Region: DinB_2; pfam12867 880070004042 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 880070004043 active site residue [active] 880070004044 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 880070004045 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 880070004046 motif II; other site 880070004047 Protein of unknown function, DUF547; Region: DUF547; pfam04784 880070004048 ATP-grasp domain; Region: ATP-grasp_4; cl17255 880070004049 Uncharacterized conserved protein [Function unknown]; Region: COG2353 880070004050 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 880070004051 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 880070004052 RNA polymerase sigma factor; Provisional; Region: PRK11924 880070004053 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880070004054 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; cl17257 880070004055 DNA binding residues [nucleotide binding] 880070004056 META domain; Region: META; pfam03724 880070004057 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 880070004058 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880070004059 NAD(P) binding site [chemical binding]; other site 880070004060 active site 880070004061 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 880070004062 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 880070004063 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 880070004064 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 880070004065 TPP-binding site; other site 880070004066 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 880070004067 PYR/PP interface [polypeptide binding]; other site 880070004068 dimer interface [polypeptide binding]; other site 880070004069 TPP binding site [chemical binding]; other site 880070004070 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 880070004071 ScpA/B protein; Region: ScpA_ScpB; cl00598 880070004072 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 880070004073 Protein of unknown function (DUF4038); Region: DUF4038; pfam13204 880070004074 Putative collagen-binding domain of a collagenase; Region: Collagen_bind_2; pfam12904 880070004075 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 880070004076 active site 880070004077 multimer interface [polypeptide binding]; other site 880070004078 DHH family; Region: DHH; pfam01368 880070004079 DHHA1 domain; Region: DHHA1; pfam02272 880070004080 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 880070004081 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 880070004082 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 880070004083 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 880070004084 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 880070004085 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 880070004086 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 880070004087 active site 880070004088 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 880070004089 16S rRNA methyltransferase B; Provisional; Region: PRK14902 880070004090 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 880070004091 Protein of unknown function (DUF2614); Region: DUF2614; cl07936 880070004092 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 880070004093 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 880070004094 S-adenosylmethionine binding site [chemical binding]; other site 880070004095 3-hydroxyanthranilate 3,4-dioxygenase; Provisional; Region: PRK13264 880070004096 kynureninase; Region: kynureninase; TIGR01814 880070004097 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 880070004098 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 880070004099 catalytic residue [active] 880070004100 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 880070004101 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 880070004102 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 880070004103 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 880070004104 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 880070004105 catalytic residue [active] 880070004106 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 880070004107 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 880070004108 RNA binding surface [nucleotide binding]; other site 880070004109 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 880070004110 active site 880070004111 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 880070004112 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 880070004113 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 880070004114 dimer interface [polypeptide binding]; other site 880070004115 motif 1; other site 880070004116 active site 880070004117 motif 2; other site 880070004118 motif 3; other site 880070004119 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 880070004120 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 880070004121 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 880070004122 active site 880070004123 Domain of unknown function (DUF3244); Region: DUF3244; pfam11589 880070004124 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 880070004125 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 880070004126 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 880070004127 catalytic residues [active] 880070004128 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 880070004129 putative bifunctional UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase/alanine racemase; Provisional; Region: PRK11930 880070004130 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 880070004131 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 880070004132 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 880070004133 active site 880070004134 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 880070004135 dimer interface [polypeptide binding]; other site 880070004136 substrate binding site [chemical binding]; other site 880070004137 catalytic residues [active] 880070004138 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 880070004139 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 880070004140 Peptidase family M28; Region: Peptidase_M28; pfam04389 880070004141 metal binding site [ion binding]; metal-binding site 880070004142 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 880070004143 catalytic residues [active] 880070004144 Protein of unknown function DUF84; Region: NTPase_I-T; cl00866 880070004145 hypothetical protein; Provisional; Region: PRK12378 880070004146 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 880070004147 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 880070004148 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 880070004149 transferase 1, rSAM/selenodomain-associated; Region: glyco_like_cofC; TIGR04282 880070004150 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 880070004151 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 880070004152 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 880070004153 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 880070004154 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 880070004155 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 880070004156 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880070004157 Walker A/P-loop; other site 880070004158 ATP binding site [chemical binding]; other site 880070004159 Q-loop/lid; other site 880070004160 ABC transporter signature motif; other site 880070004161 Walker B; other site 880070004162 D-loop; other site 880070004163 H-loop/switch region; other site 880070004164 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 880070004165 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 880070004166 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 880070004167 dimerization interface [polypeptide binding]; other site 880070004168 hypothetical protein; Validated; Region: PRK09104 880070004169 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 880070004170 metal binding site [ion binding]; metal-binding site 880070004171 putative dimer interface [polypeptide binding]; other site 880070004172 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 880070004173 Thioredoxin-like; Region: Thioredoxin_7; pfam13899 880070004174 HPP family; Region: HPP; pfam04982 880070004175 ferrochelatase; Reviewed; Region: hemH; PRK00035 880070004176 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 880070004177 C-terminal domain interface [polypeptide binding]; other site 880070004178 active site 880070004179 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 880070004180 active site 880070004181 N-terminal domain interface [polypeptide binding]; other site 880070004182 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 880070004183 Zn2+ binding site [ion binding]; other site 880070004184 Mg2+ binding site [ion binding]; other site 880070004185 phosphonatase-like hydrolase; Region: PhnX-like; TIGR03351 880070004186 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 880070004187 motif II; other site 880070004188 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 880070004189 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 880070004190 intersubunit interface [polypeptide binding]; other site 880070004191 active site 880070004192 catalytic residue [active] 880070004193 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 880070004194 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 880070004195 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 880070004196 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 880070004197 nucleoside/Zn binding site; other site 880070004198 dimer interface [polypeptide binding]; other site 880070004199 catalytic motif [active] 880070004200 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 880070004201 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 880070004202 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 880070004203 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070004204 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 880070004205 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 880070004206 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 880070004207 putative active site [active] 880070004208 putative catalytic site [active] 880070004209 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 880070004210 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 880070004211 active site 880070004212 Int/Topo IB signature motif; other site 880070004213 Dehydroquinase class II; Region: DHquinase_II; pfam01220 880070004214 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 880070004215 trimer interface [polypeptide binding]; other site 880070004216 active site 880070004217 dimer interface [polypeptide binding]; other site 880070004218 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 880070004219 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 880070004220 catalytic residue [active] 880070004221 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 880070004222 PRC-barrel domain; Region: PRC; pfam05239 880070004223 Uncharacterized conserved protein [Function unknown]; Region: COG2128 880070004224 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 880070004225 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 880070004226 catalytic residues [active] 880070004227 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 880070004228 catalytic residues [active] 880070004229 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 880070004230 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 880070004231 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 880070004232 putative catalytic residues [active] 880070004233 Domain of unknown function DUF302; Region: DUF302; pfam03625 880070004234 Domain of unknown function DUF302; Region: DUF302; pfam03625 880070004235 NIPSNAP; Region: NIPSNAP; pfam07978 880070004236 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 880070004237 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 880070004238 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 880070004239 homodimer interface [polypeptide binding]; other site 880070004240 oligonucleotide binding site [chemical binding]; other site 880070004241 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 880070004242 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 880070004243 binding surface 880070004244 Tetratricopeptide repeat; Region: TPR_16; pfam13432 880070004245 TPR motif; other site 880070004246 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 880070004247 IHF dimer interface [polypeptide binding]; other site 880070004248 IHF - DNA interface [nucleotide binding]; other site 880070004249 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 880070004250 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 880070004251 minor groove reading motif; other site 880070004252 helix-hairpin-helix signature motif; other site 880070004253 substrate binding pocket [chemical binding]; other site 880070004254 active site 880070004255 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 880070004256 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 880070004257 DNA binding and oxoG recognition site [nucleotide binding] 880070004258 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 880070004259 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 880070004260 dimer interface [polypeptide binding]; other site 880070004261 ssDNA binding site [nucleotide binding]; other site 880070004262 tetramer (dimer of dimers) interface [polypeptide binding]; other site 880070004263 Domain of unknown function DUF21; Region: DUF21; pfam01595 880070004264 gliding motility-associated protein GldE; Region: GldE; TIGR03520 880070004265 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 880070004266 Transporter associated domain; Region: CorC_HlyC; pfam03471 880070004267 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 880070004268 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 880070004269 active site 880070004270 dimer interface [polypeptide binding]; other site 880070004271 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 880070004272 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 880070004273 active site 880070004274 FMN binding site [chemical binding]; other site 880070004275 substrate binding site [chemical binding]; other site 880070004276 3Fe-4S cluster binding site [ion binding]; other site 880070004277 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 880070004278 domain interface; other site 880070004279 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 880070004280 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 880070004281 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 880070004282 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 880070004283 OsmC-like protein; Region: OsmC; pfam02566 880070004284 methionine sulfoxide reductase A; Provisional; Region: PRK14054 880070004285 PAS domain S-box; Region: sensory_box; TIGR00229 880070004286 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 880070004287 putative active site [active] 880070004288 heme pocket [chemical binding]; other site 880070004289 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 880070004290 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 880070004291 putative active site [active] 880070004292 heme pocket [chemical binding]; other site 880070004293 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 880070004294 dimer interface [polypeptide binding]; other site 880070004295 phosphorylation site [posttranslational modification] 880070004296 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 880070004297 ATP binding site [chemical binding]; other site 880070004298 Mg2+ binding site [ion binding]; other site 880070004299 G-X-G motif; other site 880070004300 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 880070004301 Mechanosensitive ion channel; Region: MS_channel; pfam00924 880070004302 Protein of unknown function (DUF1706); Region: DUF1706; cl01748 880070004303 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 880070004304 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_15; cd07264 880070004305 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 880070004306 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 880070004307 Domain of unknown function (DUF3127); Region: DUF3127; pfam11325 880070004308 AIR carboxylase; Region: AIRC; pfam00731 880070004309 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 880070004310 TrkA-N domain; Region: TrkA_N; pfam02254 880070004311 ATP-grasp domain; Region: ATP-grasp; pfam02222 880070004312 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880070004313 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 880070004314 Walker A/P-loop; other site 880070004315 ATP binding site [chemical binding]; other site 880070004316 Q-loop/lid; other site 880070004317 ABC transporter signature motif; other site 880070004318 Walker B; other site 880070004319 D-loop; other site 880070004320 H-loop/switch region; other site 880070004321 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 880070004322 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 880070004323 Domain of unknown function (DUF4374); Region: DUF4374; pfam14298 880070004324 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070004325 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 880070004326 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 880070004327 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 880070004328 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 880070004329 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 880070004330 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 880070004331 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 880070004332 N-terminal plug; other site 880070004333 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 880070004334 ligand-binding site [chemical binding]; other site 880070004335 Mechanosensitive ion channel; Region: MS_channel; pfam00924 880070004336 Methyltransferase domain; Region: Methyltransf_31; pfam13847 880070004337 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 880070004338 S-adenosylmethionine binding site [chemical binding]; other site 880070004339 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 880070004340 Chalcone and stilbene synthases; plant-specific polyketide synthases (PKS) and related enzymes, also called type III PKSs. PKS generate an array of different products, dependent on the nature of the starter molecule. They share a common chemical strategy; Region: CHS_like; cd00831 880070004341 malonyl-CoA binding site [chemical binding]; other site 880070004342 dimer interface [polypeptide binding]; other site 880070004343 active site 880070004344 product binding site; other site 880070004345 UbiA prenyltransferase family; Region: UbiA; pfam01040 880070004346 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 880070004347 Trehalose utilisation; Region: ThuA; pfam06283 880070004348 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 880070004349 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 880070004350 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 880070004351 Cytochrome c; Region: Cytochrom_C; cl11414 880070004352 Lycopene cyclase protein; Region: Lycopene_cycl; pfam05834 880070004353 lycopene cyclase; Region: lycopene_cycl; TIGR01789 880070004354 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 880070004355 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 880070004356 putative ligand binding site [chemical binding]; other site 880070004357 putative NAD binding site [chemical binding]; other site 880070004358 catalytic site [active] 880070004359 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 880070004360 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 880070004361 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 880070004362 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 880070004363 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12901 880070004364 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 880070004365 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 880070004366 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 880070004367 metal binding site [ion binding]; metal-binding site 880070004368 dimer interface [polypeptide binding]; other site 880070004369 S1/P1 nucleases and related enzymes; Region: S1-P1_nuclease; cd11010 880070004370 active site 880070004371 Zn binding site [ion binding]; other site 880070004372 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 880070004373 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 880070004374 active site 880070004375 D-alanyl-alanine synthetase A; Provisional; Region: PRK14572 880070004376 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 880070004377 putative active site [active] 880070004378 putative catalytic site [active] 880070004379 putative DNA binding site [nucleotide binding]; other site 880070004380 putative phosphate binding site [ion binding]; other site 880070004381 metal binding site A [ion binding]; metal-binding site 880070004382 putative AP binding site [nucleotide binding]; other site 880070004383 putative metal binding site B [ion binding]; other site 880070004384 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 880070004385 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 880070004386 ATP binding site [chemical binding]; other site 880070004387 Mg2+ binding site [ion binding]; other site 880070004388 G-X-G motif; other site 880070004389 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 880070004390 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 880070004391 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 880070004392 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 880070004393 Methyltransferase domain; Region: Methyltransf_23; pfam13489 880070004394 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 880070004395 S-adenosylmethionine binding site [chemical binding]; other site 880070004396 Bacterial Ig-like domain; Region: Big_5; pfam13205 880070004397 Middle domain of rhamnogalacturonan lyase, a family 4 polysaccharide lyase; Region: RGL4_M; cd10316 880070004398 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 880070004399 MarR family; Region: MarR; pfam01047 880070004400 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 880070004401 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 880070004402 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 880070004403 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 880070004404 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 880070004405 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 880070004406 substrate binding site [chemical binding]; other site 880070004407 oxyanion hole (OAH) forming residues; other site 880070004408 trimer interface [polypeptide binding]; other site 880070004409 acetyl-CoA acetyltransferase; Provisional; Region: PRK07661 880070004410 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 880070004411 dimer interface [polypeptide binding]; other site 880070004412 active site 880070004413 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 880070004414 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 880070004415 active site 880070004416 DinB superfamily; Region: DinB_2; pfam12867 880070004417 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 880070004418 methionine sulfoxide reductase B; Provisional; Region: PRK00222 880070004419 SelR domain; Region: SelR; pfam01641 880070004420 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 880070004421 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 880070004422 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 880070004423 Trehalose utilisation; Region: ThuA; pfam06283 880070004424 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 880070004425 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 880070004426 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880070004427 NAD(P) binding site [chemical binding]; other site 880070004428 active site 880070004429 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 880070004430 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 880070004431 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 880070004432 S-adenosylmethionine binding site [chemical binding]; other site 880070004433 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 880070004434 G1 box; other site 880070004435 GTP/Mg2+ binding site [chemical binding]; other site 880070004436 Switch I region; other site 880070004437 G2 box; other site 880070004438 G3 box; other site 880070004439 Switch II region; other site 880070004440 G4 box; other site 880070004441 G5 box; other site 880070004442 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 880070004443 AMP binding site [chemical binding]; other site 880070004444 metal binding site [ion binding]; metal-binding site 880070004445 active site 880070004446 Aspartokinases [Amino acid transport and metabolism]; Region: LysC; COG0527 880070004447 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 880070004448 nucleotide binding site [chemical binding]; other site 880070004449 substrate binding site [chemical binding]; other site 880070004450 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 880070004451 Low molecular weight phosphatase family; Region: LMWPc; cd00115 880070004452 active site 880070004453 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 880070004454 metal binding site 2 [ion binding]; metal-binding site 880070004455 putative DNA binding helix; other site 880070004456 metal binding site 1 [ion binding]; metal-binding site 880070004457 dimer interface [polypeptide binding]; other site 880070004458 structural Zn2+ binding site [ion binding]; other site 880070004459 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 880070004460 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 880070004461 dimer interface [polypeptide binding]; other site 880070004462 decamer (pentamer of dimers) interface [polypeptide binding]; other site 880070004463 catalytic triad [active] 880070004464 peroxidatic and resolving cysteines [active] 880070004465 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 880070004466 GAF domain; Region: GAF; pfam01590 880070004467 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 880070004468 putative active site [active] 880070004469 PAS fold; Region: PAS_3; pfam08447 880070004470 heme pocket [chemical binding]; other site 880070004471 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 880070004472 dimer interface [polypeptide binding]; other site 880070004473 phosphorylation site [posttranslational modification] 880070004474 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 880070004475 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 880070004476 Soluble P-type ATPase [General function prediction only]; Region: COG4087 880070004477 PPOX class probable FMN-dependent enzyme, alr4036 family; Region: PPOX_FMN_cyano; TIGR04026 880070004478 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 880070004479 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 880070004480 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070004481 Sulfatase; Region: Sulfatase; pfam00884 880070004482 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 880070004483 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 880070004484 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 880070004485 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 880070004486 Cysteine-rich domain; Region: CCG; pfam02754 880070004487 Cysteine-rich domain; Region: CCG; pfam02754 880070004488 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 880070004489 putative SAM binding site [chemical binding]; other site 880070004490 homodimer interface [polypeptide binding]; other site 880070004491 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 880070004492 Transposase IS200 like; Region: Y1_Tnp; pfam01797 880070004493 acyl-CoA esterase; Provisional; Region: PRK10673 880070004494 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 880070004495 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 880070004496 active site 880070004497 hydrophilic channel; other site 880070004498 dimerization interface [polypeptide binding]; other site 880070004499 catalytic residues [active] 880070004500 active site lid [active] 880070004501 Yqey-like protein; Region: YqeY; pfam09424 880070004502 Colicin V production protein; Region: Colicin_V; pfam02674 880070004503 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 880070004504 Glutamine amidotransferase class-I; Region: GATase; pfam00117 880070004505 glutamine binding [chemical binding]; other site 880070004506 catalytic triad [active] 880070004507 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 880070004508 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 880070004509 ATP-NAD kinase; Region: NAD_kinase; pfam01513 880070004510 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 880070004511 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 880070004512 catalytic residue [active] 880070004513 putative FPP diphosphate binding site; other site 880070004514 putative FPP binding hydrophobic cleft; other site 880070004515 dimer interface [polypeptide binding]; other site 880070004516 putative IPP diphosphate binding site; other site 880070004517 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 880070004518 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 880070004519 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 880070004520 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 880070004521 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 880070004522 Surface antigen; Region: Bac_surface_Ag; pfam01103 880070004523 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 880070004524 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 880070004525 Amidohydrolase; Region: Amidohydro_2; pfam04909 880070004526 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 880070004527 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 880070004528 active site 880070004529 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 880070004530 RNA/DNA hybrid binding site [nucleotide binding]; other site 880070004531 active site 880070004532 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 880070004533 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 880070004534 S-adenosylmethionine binding site [chemical binding]; other site 880070004535 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 880070004536 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 880070004537 extended (e) SDRs; Region: SDR_e; cd08946 880070004538 NAD(P) binding site [chemical binding]; other site 880070004539 active site 880070004540 substrate binding site [chemical binding]; other site 880070004541 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 880070004542 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 880070004543 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 880070004544 Transposase IS200 like; Region: Y1_Tnp; cl00848 880070004545 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880070004546 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 880070004547 binding surface 880070004548 TPR motif; other site 880070004549 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880070004550 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 880070004551 binding surface 880070004552 TPR motif; other site 880070004553 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880070004554 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880070004555 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 880070004556 binding surface 880070004557 TPR motif; other site 880070004558 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880070004559 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880070004560 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 880070004561 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 880070004562 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 880070004563 A new structural DNA glycosylase; Region: AlkD_like; cd06561 880070004564 active site 880070004565 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 880070004566 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 880070004567 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 880070004568 starch binding outer membrane protein SusD; Region: SusD; cd08977 880070004569 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070004570 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070004571 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070004572 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 880070004573 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 880070004574 active site 880070004575 catalytic motif [active] 880070004576 Zn binding site [ion binding]; other site 880070004577 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 880070004578 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 880070004579 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 880070004580 GTPase RsgA; Reviewed; Region: PRK00098 880070004581 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 880070004582 RNA binding site [nucleotide binding]; other site 880070004583 homodimer interface [polypeptide binding]; other site 880070004584 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 880070004585 GTPase/Zn-binding domain interface [polypeptide binding]; other site 880070004586 GTP/Mg2+ binding site [chemical binding]; other site 880070004587 G4 box; other site 880070004588 G5 box; other site 880070004589 G1 box; other site 880070004590 Switch I region; other site 880070004591 G2 box; other site 880070004592 G3 box; other site 880070004593 Switch II region; other site 880070004594 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 880070004595 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 880070004596 active site 880070004597 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 880070004598 active site 880070004599 oligomerization interface [polypeptide binding]; other site 880070004600 metal binding site [ion binding]; metal-binding site 880070004601 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 880070004602 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 880070004603 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 880070004604 Cytochrome c; Region: Cytochrom_C; cl11414 880070004605 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 880070004606 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; cl12060 880070004607 Metal-binding active site; metal-binding site 880070004608 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 880070004609 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 880070004610 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 880070004611 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 880070004612 Nucleoside H+ symporter; Region: Nuc_H_symport; pfam03825 880070004613 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 880070004614 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 880070004615 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 880070004616 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 880070004617 Bacterial SH3 domain homologues; Region: SH3b; smart00287 880070004618 starch binding outer membrane protein SusD; Region: SusD; cl17845 880070004619 SusD family; Region: SusD; pfam07980 880070004620 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070004621 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070004622 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070004623 Planctomycete cytochrome C; Region: PSCyt1; pfam07635 880070004624 Protein of unknown function (DUF1549); Region: PSCyt2; pfam07583 880070004625 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 880070004626 Protein of unknown function (DUF1553); Region: PSD1; pfam07587 880070004627 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 880070004628 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 880070004629 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 880070004630 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 880070004631 Predicted membrane protein [Function unknown]; Region: COG4325 880070004632 Protein of unknown function (DUF4199); Region: DUF4199; pfam13858 880070004633 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 880070004634 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 880070004635 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 880070004636 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 880070004637 NAD(P) binding site [chemical binding]; other site 880070004638 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 880070004639 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Low Specificity D-Threonine Aldolase; Region: PLPDE_III_LS_D-TA; cd06819 880070004640 dimer interface [polypeptide binding]; other site 880070004641 active site 880070004642 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 880070004643 substrate binding site [chemical binding]; other site 880070004644 catalytic residue [active] 880070004645 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 880070004646 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 880070004647 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070004648 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 880070004649 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 880070004650 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 880070004651 homotrimer interaction site [polypeptide binding]; other site 880070004652 putative active site [active] 880070004653 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 880070004654 homotrimer interaction site [polypeptide binding]; other site 880070004655 putative active site [active] 880070004656 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 880070004657 homotrimer interaction site [polypeptide binding]; other site 880070004658 putative active site [active] 880070004659 Domain of unknown function (DUF4221); Region: DUF4221; pfam13970 880070004660 Domain of unknown function (DUF4221); Region: DUF4221; pfam13970 880070004661 Putative addiction module component; Region: Unstab_antitox; cl09921 880070004662 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 880070004663 Domain of unknown function (DUF4221); Region: DUF4221; pfam13970 880070004664 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070004665 Sulfatase; Region: Sulfatase; pfam00884 880070004666 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 880070004667 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 880070004668 active site 880070004669 Domain of unknown function (DUF2383); Region: DUF2383; pfam09537 880070004670 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 880070004671 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 880070004672 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 880070004673 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 880070004674 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 880070004675 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 880070004676 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 880070004677 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 880070004678 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 880070004679 ribonuclease P; Reviewed; Region: rnpA; PRK01903 880070004680 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 880070004681 C-terminal peptidase (prc); Region: prc; TIGR00225 880070004682 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 880070004683 protein binding site [polypeptide binding]; other site 880070004684 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 880070004685 Catalytic dyad [active] 880070004686 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 880070004687 Glycoprotease family; Region: Peptidase_M22; pfam00814 880070004688 Protein of unknown function (DUF2480); Region: DUF2480; pfam10652 880070004689 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 880070004690 Amidohydrolase; Region: Amidohydro_2; pfam04909 880070004691 active site 880070004692 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 880070004693 alpha-crystallin domain (ACD) found in alpha-crystallin-type small heat shock proteins, and a similar domain found in p23 (a cochaperone for Hsp90) and in other p23-like proteins; Region: alpha-crystallin-Hsps_p23-like; cl00175 880070004694 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 880070004695 DctM-like transporters; Region: DctM; pfam06808 880070004696 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 880070004697 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 880070004698 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 880070004699 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 880070004700 Lamin Tail Domain; Region: LTD; pfam00932 880070004701 Bacterial Ig-like domain; Region: Big_5; pfam13205 880070004702 Anabaena sensory rhodopsin transducer; Region: ASRT; cl01751 880070004703 Lamin Tail Domain; Region: LTD; pfam00932 880070004704 Lamin Tail Domain; Region: LTD; pfam00932 880070004705 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 880070004706 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 880070004707 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 880070004708 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 880070004709 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 880070004710 translation initiation factor IF-2; Region: IF-2; TIGR00487 880070004711 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 880070004712 G1 box; other site 880070004713 putative GEF interaction site [polypeptide binding]; other site 880070004714 GTP/Mg2+ binding site [chemical binding]; other site 880070004715 Switch I region; other site 880070004716 G2 box; other site 880070004717 G3 box; other site 880070004718 Switch II region; other site 880070004719 G4 box; other site 880070004720 G5 box; other site 880070004721 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 880070004722 Translation-initiation factor 2; Region: IF-2; pfam11987 880070004723 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 880070004724 transcription termination factor NusA; Region: NusA; TIGR01953 880070004725 NusA N-terminal domain; Region: NusA_N; pfam08529 880070004726 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 880070004727 RNA binding site [nucleotide binding]; other site 880070004728 homodimer interface [polypeptide binding]; other site 880070004729 NusA-like KH domain; Region: KH_5; pfam13184 880070004730 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 880070004731 G-X-X-G motif; other site 880070004732 ribosome maturation protein RimP; Reviewed; Region: PRK00092 880070004733 hypothetical protein; Provisional; Region: PRK14641 880070004734 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 880070004735 putative oligomer interface [polypeptide binding]; other site 880070004736 putative RNA binding site [nucleotide binding]; other site 880070004737 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 880070004738 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 880070004739 active site 880070004740 HIGH motif; other site 880070004741 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 880070004742 KMSKS motif; other site 880070004743 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 880070004744 tRNA binding surface [nucleotide binding]; other site 880070004745 anticodon binding site; other site 880070004746 M28 Zn-Peptidases; Region: M28_like_6; cd08656 880070004747 Peptidase family M28; Region: Peptidase_M28; pfam04389 880070004748 metal binding site [ion binding]; metal-binding site 880070004749 galactokinase; Provisional; Region: PRK05322 880070004750 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 880070004751 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 880070004752 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 880070004753 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 880070004754 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 880070004755 non-specific DNA binding site [nucleotide binding]; other site 880070004756 salt bridge; other site 880070004757 sequence-specific DNA binding site [nucleotide binding]; other site 880070004758 LytTr DNA-binding domain; Region: LytTR; smart00850 880070004759 CAAX protease self-immunity; Region: Abi; pfam02517 880070004760 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 880070004761 haloacid dehalogenase-like hydrolase family protein; Region: PLN02919 880070004762 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 880070004763 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 880070004764 non-specific DNA binding site [nucleotide binding]; other site 880070004765 salt bridge; other site 880070004766 sequence-specific DNA binding site [nucleotide binding]; other site 880070004767 RDD family; Region: RDD; pfam06271 880070004768 OsmC-like protein; Region: OsmC; pfam02566 880070004769 Domain of unknown function (DUF303); Region: DUF303; pfam03629 880070004770 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 880070004771 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 880070004772 catalytic residue [active] 880070004773 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 880070004774 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 880070004775 S-adenosylmethionine binding site [chemical binding]; other site 880070004776 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 880070004777 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 880070004778 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 880070004779 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 880070004780 homotrimer interaction site [polypeptide binding]; other site 880070004781 putative active site [active] 880070004782 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 880070004783 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 880070004784 catalytic residue [active] 880070004785 dihydroorotase; Provisional; Region: PRK09237 880070004786 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 880070004787 active site 880070004788 dihydroorotase; Provisional; Region: PRK09237 880070004789 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 880070004790 active site 880070004791 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 880070004792 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 880070004793 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 880070004794 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 880070004795 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 880070004796 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070004797 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070004798 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 880070004799 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 880070004800 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 880070004801 starch binding outer membrane protein SusD; Region: SusD; cd08977 880070004802 Family description; Region: VCBS; pfam13517 880070004803 Family description; Region: VCBS; pfam13517 880070004804 Family description; Region: VCBS; pfam13517 880070004805 Family description; Region: VCBS; pfam13517 880070004806 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 880070004807 Family description; Region: VCBS; pfam13517 880070004808 Family description; Region: VCBS; pfam13517 880070004809 Family description; Region: VCBS; pfam13517 880070004810 Peptidase C25 family N-terminal domain, found in Arg-gingipain (Rgp), Lys-gingipain (Kgp) and related proteins; Region: Peptidase_C25_N; cl03181 880070004811 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 880070004812 Sodium Bile acid symporter family; Region: SBF; cl17470 880070004813 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 880070004814 Sodium Bile acid symporter family; Region: SBF; pfam01758 880070004815 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 880070004816 homotrimer interaction site [polypeptide binding]; other site 880070004817 putative active site [active] 880070004818 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 880070004819 PAS domain; Region: PAS; smart00091 880070004820 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 880070004821 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 880070004822 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 880070004823 putative active site [active] 880070004824 heme pocket [chemical binding]; other site 880070004825 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 880070004826 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 880070004827 dimer interface [polypeptide binding]; other site 880070004828 phosphorylation site [posttranslational modification] 880070004829 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 880070004830 ATP binding site [chemical binding]; other site 880070004831 Mg2+ binding site [ion binding]; other site 880070004832 G-X-G motif; other site 880070004833 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 880070004834 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 880070004835 active site 880070004836 phosphorylation site [posttranslational modification] 880070004837 intermolecular recognition site; other site 880070004838 dimerization interface [polypeptide binding]; other site 880070004839 PAS domain S-box; Region: sensory_box; TIGR00229 880070004840 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 880070004841 putative active site [active] 880070004842 heme pocket [chemical binding]; other site 880070004843 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 880070004844 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 880070004845 inhibitor-cofactor binding pocket; inhibition site 880070004846 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880070004847 catalytic residue [active] 880070004848 Protein of unknown function (DUF502); Region: DUF502; cl01107 880070004849 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 880070004850 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 880070004851 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 880070004852 FMN-binding domain; Region: FMN_bind; cl01081 880070004853 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 880070004854 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 880070004855 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 880070004856 lipoyl-biotinyl attachment site [posttranslational modification]; other site 880070004857 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 880070004858 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 880070004859 LytB protein; Region: LYTB; cl00507 880070004860 cytidylate kinase; Provisional; Region: cmk; PRK00023 880070004861 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 880070004862 CMP-binding site; other site 880070004863 The sites determining sugar specificity; other site 880070004864 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 880070004865 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 880070004866 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 880070004867 active site 880070004868 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 880070004869 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880070004870 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 880070004871 dimer interface [polypeptide binding]; other site 880070004872 phosphorylation site [posttranslational modification] 880070004873 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 880070004874 ATP binding site [chemical binding]; other site 880070004875 Mg2+ binding site [ion binding]; other site 880070004876 G-X-G motif; other site 880070004877 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 880070004878 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 880070004879 dimer interface [polypeptide binding]; other site 880070004880 phosphorylation site [posttranslational modification] 880070004881 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 880070004882 ATP binding site [chemical binding]; other site 880070004883 Mg2+ binding site [ion binding]; other site 880070004884 G-X-G motif; other site 880070004885 Protein of unknown function (DUF3810); Region: DUF3810; pfam12725 880070004886 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 880070004887 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 880070004888 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 880070004889 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 880070004890 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 880070004891 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 880070004892 Tetramer interface [polypeptide binding]; other site 880070004893 active site 880070004894 FMN-binding site [chemical binding]; other site 880070004895 Oxygen tolerance; Region: BatD; pfam13584 880070004896 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 880070004897 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880070004898 Walker A/P-loop; other site 880070004899 ATP binding site [chemical binding]; other site 880070004900 Q-loop/lid; other site 880070004901 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 880070004902 ABC transporter signature motif; other site 880070004903 Walker B; other site 880070004904 D-loop; other site 880070004905 ABC transporter; Region: ABC_tran_2; pfam12848 880070004906 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 880070004907 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 880070004908 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 880070004909 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 880070004910 active site residue [active] 880070004911 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 880070004912 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 880070004913 putative trimer interface [polypeptide binding]; other site 880070004914 putative CoA binding site [chemical binding]; other site 880070004915 Protein of unknown function (DUF2851); Region: DUF2851; pfam11013 880070004916 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 880070004917 active site 880070004918 dimer interface [polypeptide binding]; other site 880070004919 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 880070004920 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 880070004921 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 880070004922 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 880070004923 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 880070004924 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 880070004925 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 880070004926 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 880070004927 quinone interaction residues [chemical binding]; other site 880070004928 active site 880070004929 catalytic residues [active] 880070004930 FMN binding site [chemical binding]; other site 880070004931 substrate binding site [chemical binding]; other site 880070004932 Low molecular weight phosphatase family; Region: LMWPc; cl00105 880070004933 active site 880070004934 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 880070004935 dimerization interface [polypeptide binding]; other site 880070004936 putative DNA binding site [nucleotide binding]; other site 880070004937 putative Zn2+ binding site [ion binding]; other site 880070004938 inner membrane protein; Provisional; Region: PRK11715 880070004939 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 880070004940 M28 Zn-Peptidases; Region: M28_like_4; cd08015 880070004941 Peptidase family M28; Region: Peptidase_M28; pfam04389 880070004942 metal binding site [ion binding]; metal-binding site 880070004943 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 880070004944 conserved cys residue [active] 880070004945 PemK-like protein; Region: PemK; pfam02452 880070004946 Predicted flavoprotein [General function prediction only]; Region: COG0431 880070004947 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 880070004948 Transposase IS200 like; Region: Y1_Tnp; pfam01797 880070004949 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 880070004950 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 880070004951 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 880070004952 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 880070004953 Coenzyme A binding pocket [chemical binding]; other site 880070004954 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 880070004955 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 880070004956 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 880070004957 ClC sycA-like chloride channel proteins. This ClC family presents in bacteria, where it facilitates acid resistance in acidic soil. Mutation of this gene (sycA) in Rhizobium tropici CIAT899 causes serious deficiencies in nodule development, nodulation...; Region: ClC_sycA_like; cd03682 880070004958 putative Cl- selectivity filter; other site 880070004959 putative pore gating glutamate residue; other site 880070004960 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880070004961 TIGR01777 family protein; Region: yfcH 880070004962 NAD(P) binding site [chemical binding]; other site 880070004963 active site 880070004964 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_1; cd06238 880070004965 putative active site [active] 880070004966 Zn binding site [ion binding]; other site 880070004967 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 880070004968 Domain of unknown function (DUF4286); Region: DUF4286; pfam14114 880070004969 Protein of unknown function (DUF422); Region: DUF422; cl00991 880070004970 beta-carotene hydroxylase; Region: PLN02601 880070004971 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 880070004972 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 880070004973 DNA binding residues [nucleotide binding] 880070004974 B12 binding domain; Region: B12-binding_2; pfam02607 880070004975 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 880070004976 B12 binding site [chemical binding]; other site 880070004977 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 880070004978 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 880070004979 Cytochrome c; Region: Cytochrom_C; pfam00034 880070004980 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_3; cd09620 880070004981 putative ligand binding site [chemical binding]; other site 880070004982 dihydroorotase; Provisional; Region: PRK09237 880070004983 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 880070004984 active site 880070004985 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 880070004986 homotrimer interaction site [polypeptide binding]; other site 880070004987 putative active site [active] 880070004988 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 880070004989 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 880070004990 catalytic residue [active] 880070004991 dihydroorotase; Provisional; Region: PRK09237 880070004992 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 880070004993 active site 880070004994 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 880070004995 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 880070004996 catalytic residues [active] 880070004997 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 880070004998 active site 880070004999 catalytic site [active] 880070005000 substrate binding site [chemical binding]; other site 880070005001 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 880070005002 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 880070005003 active site 880070005004 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 880070005005 generic binding surface II; other site 880070005006 generic binding surface I; other site 880070005007 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 880070005008 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 880070005009 active site 880070005010 metal binding site [ion binding]; metal-binding site 880070005011 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070005012 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070005013 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 880070005014 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 880070005015 starch binding outer membrane protein SusD; Region: SusD; cl17845 880070005016 starch binding outer membrane protein SusD; Region: SusD; cl17845 880070005017 Uncharacterized protein family (UPF0182); Region: UPF0182; pfam03699 880070005018 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 880070005019 putative dimerization interface [polypeptide binding]; other site 880070005020 Transcriptional regulators [Transcription]; Region: PurR; COG1609 880070005021 putative ligand binding site [chemical binding]; other site 880070005022 Helix-turn-helix domain; Region: HTH_18; pfam12833 880070005023 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 880070005024 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 880070005025 putative substrate translocation pore; other site 880070005026 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 880070005027 glucose/galactose transporter; Region: gluP; TIGR01272 880070005028 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 880070005029 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 880070005030 nucleotide binding site [chemical binding]; other site 880070005031 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 880070005032 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 880070005033 active site 880070005034 metal binding site [ion binding]; metal-binding site 880070005035 BNR repeat-like domain; Region: BNR_2; pfam13088 880070005036 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 880070005037 Asp-box motif; other site 880070005038 catalytic site [active] 880070005039 Thermus thermophiles TTHB029 and similar proteins; Region: YdjC_TTHB029_like; cd10802 880070005040 putative active site [active] 880070005041 YdjC motif; other site 880070005042 Mg binding site [ion binding]; other site 880070005043 homodimer interface [polypeptide binding]; other site 880070005044 BNR repeat-like domain; Region: BNR_2; pfam13088 880070005045 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 880070005046 Asp-box motif; other site 880070005047 catalytic site [active] 880070005048 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 880070005049 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 880070005050 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 880070005051 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 880070005052 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 880070005053 putative active site [active] 880070005054 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 880070005055 gamma subunit interface [polypeptide binding]; other site 880070005056 LBP interface [polypeptide binding]; other site 880070005057 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 880070005058 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 880070005059 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 880070005060 alpha subunit interaction interface [polypeptide binding]; other site 880070005061 Walker A motif; other site 880070005062 ATP binding site [chemical binding]; other site 880070005063 Walker B motif; other site 880070005064 inhibitor binding site; inhibition site 880070005065 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 880070005066 NlpC/P60 family; Region: NLPC_P60; pfam00877 880070005067 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 880070005068 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 880070005069 CoA-binding site [chemical binding]; other site 880070005070 ATP-binding [chemical binding]; other site 880070005071 Preprotein translocase subunit; Region: YajC; pfam02699 880070005072 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 880070005073 transcription antitermination factor NusB; Region: nusB; TIGR01951 880070005074 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 880070005075 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 880070005076 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 880070005077 NAD binding site [chemical binding]; other site 880070005078 Phe binding site; other site 880070005079 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 880070005080 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 880070005081 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880070005082 Walker A/P-loop; other site 880070005083 ATP binding site [chemical binding]; other site 880070005084 Q-loop/lid; other site 880070005085 ABC transporter signature motif; other site 880070005086 Walker B; other site 880070005087 D-loop; other site 880070005088 H-loop/switch region; other site 880070005089 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 880070005090 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 880070005091 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 880070005092 catalytic residue [active] 880070005093 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 880070005094 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 880070005095 active site 880070005096 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_2; cd06239 880070005097 putative active site [active] 880070005098 Zn binding site [ion binding]; other site 880070005099 Methyltransferase domain; Region: Methyltransf_31; pfam13847 880070005100 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 880070005101 S-adenosylmethionine binding site [chemical binding]; other site 880070005102 DNA repair protein RadA; Provisional; Region: PRK11823 880070005103 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 880070005104 Walker A motif/ATP binding site; other site 880070005105 ATP binding site [chemical binding]; other site 880070005106 Walker B motif; other site 880070005107 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 880070005108 DNA polymerase I; Provisional; Region: PRK05755 880070005109 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 880070005110 active site 880070005111 metal binding site 1 [ion binding]; metal-binding site 880070005112 putative 5' ssDNA interaction site; other site 880070005113 metal binding site 3; metal-binding site 880070005114 metal binding site 2 [ion binding]; metal-binding site 880070005115 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 880070005116 putative DNA binding site [nucleotide binding]; other site 880070005117 putative metal binding site [ion binding]; other site 880070005118 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 880070005119 active site 880070005120 catalytic site [active] 880070005121 substrate binding site [chemical binding]; other site 880070005122 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 880070005123 active site 880070005124 DNA binding site [nucleotide binding] 880070005125 catalytic site [active] 880070005126 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 880070005127 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 880070005128 HIGH motif; other site 880070005129 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 880070005130 active site 880070005131 KMSKS motif; other site 880070005132 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 880070005133 Tetratricopeptide repeat; Region: TPR_16; pfam13432 880070005134 Haemolytic domain; Region: Haemolytic; pfam01809 880070005135 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 880070005136 4Fe-4S binding domain; Region: Fer4; pfam00037 880070005137 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 880070005138 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 880070005139 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 880070005140 Walker A motif; other site 880070005141 ATP binding site [chemical binding]; other site 880070005142 Walker B motif; other site 880070005143 arginine finger; other site 880070005144 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 880070005145 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 880070005146 ApbE family; Region: ApbE; pfam02424 880070005147 ZIP Zinc transporter; Region: Zip; pfam02535 880070005148 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 880070005149 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 880070005150 Glycosyl hydrolase family 67 N-terminus; Region: Glyco_hydro_67N; pfam03648 880070005151 Transposase; Region: DEDD_Tnp_IS110; pfam01548 880070005152 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 880070005153 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 880070005154 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 880070005155 active site 880070005156 catalytic triad [active] 880070005157 oxyanion hole [active] 880070005158 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 880070005159 Neutral/alkaline non-lysosomal ceramidase; Region: Ceramidase_alk; cl04712 880070005160 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 880070005161 dimerization interface [polypeptide binding]; other site 880070005162 ATP binding site [chemical binding]; other site 880070005163 Tetratricopeptide repeat; Region: TPR_16; pfam13432 880070005164 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 880070005165 TPR motif; other site 880070005166 binding surface 880070005167 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 880070005168 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 880070005169 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 880070005170 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 880070005171 ligand binding site [chemical binding]; other site 880070005172 CoB--CoM heterodisulfide reductase, subunit B; Region: CoB_CoM_SS_B; TIGR03288 880070005173 Cysteine-rich domain; Region: CCG; pfam02754 880070005174 Cysteine-rich domain; Region: CCG; pfam02754 880070005175 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 880070005176 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 880070005177 4Fe-4S binding domain; Region: Fer4_3; pfam12798 880070005178 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880070005179 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 880070005180 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 880070005181 DNA binding residues [nucleotide binding] 880070005182 Domain of unknown function (DUF4252); Region: DUF4252; pfam14060 880070005183 Domain of unknown function (DUF4252); Region: DUF4252; pfam14060 880070005184 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 880070005185 E-class dimer interface [polypeptide binding]; other site 880070005186 P-class dimer interface [polypeptide binding]; other site 880070005187 active site 880070005188 Cu2+ binding site [ion binding]; other site 880070005189 Zn2+ binding site [ion binding]; other site 880070005190 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_17; cd08356 880070005191 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 880070005192 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 880070005193 cofactor binding site; other site 880070005194 DNA binding site [nucleotide binding] 880070005195 substrate interaction site [chemical binding]; other site 880070005196 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 880070005197 substrate interaction site [chemical binding]; other site 880070005198 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 880070005199 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 880070005200 DGQHR domain; Region: DGQHR; TIGR03187 880070005201 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 880070005202 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 880070005203 active site 880070005204 phosphorylation site [posttranslational modification] 880070005205 intermolecular recognition site; other site 880070005206 dimerization interface [polypeptide binding]; other site 880070005207 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 880070005208 DNA binding site [nucleotide binding] 880070005209 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880070005210 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 880070005211 ATP binding site [chemical binding]; other site 880070005212 Mg2+ binding site [ion binding]; other site 880070005213 G-X-G motif; other site 880070005214 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 880070005215 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 880070005216 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 880070005217 Transposase; Region: DEDD_Tnp_IS110; pfam01548 880070005218 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 880070005219 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 880070005220 PQQ-like domain; Region: PQQ_2; pfam13360 880070005221 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 880070005222 SCP: SCP-like extracellular protein domain, found in eukaryotes and prokaryotes. This family includes plant pathogenesis-related protein 1 (PR-1), which accumulates after infections with pathogens, and may act as an anti-fungal agent or be involved in...; Region: SCP; cl00133 880070005223 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 880070005224 ribonucleoside--diphosphate reductase large subunit; Region: PLN02437 880070005225 ATP cone domain; Region: ATP-cone; pfam03477 880070005226 Class I ribonucleotide reductase; Region: RNR_I; cd01679 880070005227 active site 880070005228 dimer interface [polypeptide binding]; other site 880070005229 catalytic residues [active] 880070005230 effector binding site; other site 880070005231 R2 peptide binding site; other site 880070005232 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 880070005233 dimer interface [polypeptide binding]; other site 880070005234 putative radical transfer pathway; other site 880070005235 diiron center [ion binding]; other site 880070005236 tyrosyl radical; other site 880070005237 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 880070005238 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 880070005239 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 880070005240 30S subunit binding site; other site 880070005241 Rhomboid family; Region: Rhomboid; cl11446 880070005242 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 880070005243 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 880070005244 substrate binding pocket [chemical binding]; other site 880070005245 chain length determination region; other site 880070005246 substrate-Mg2+ binding site; other site 880070005247 catalytic residues [active] 880070005248 aspartate-rich region 1; other site 880070005249 active site lid residues [active] 880070005250 aspartate-rich region 2; other site 880070005251 ribonuclease R; Region: RNase_R; TIGR02063 880070005252 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 880070005253 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 880070005254 RNB domain; Region: RNB; pfam00773 880070005255 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 880070005256 RNA binding site [nucleotide binding]; other site 880070005257 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 880070005258 active site 880070005259 catalytic site [active] 880070005260 substrate binding site [chemical binding]; other site 880070005261 Lipoate-protein ligase B [Coenzyme metabolism]; Region: LipB; COG0321 880070005262 hypothetical protein; Reviewed; Region: PRK12497 880070005263 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 880070005264 aspartate aminotransferase; Provisional; Region: PRK05764 880070005265 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 880070005266 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880070005267 homodimer interface [polypeptide binding]; other site 880070005268 catalytic residue [active] 880070005269 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 880070005270 active site 880070005271 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 880070005272 Domain of unknown function (DUF4421); Region: DUF4421; pfam14391 880070005273 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070005274 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070005275 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 880070005276 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 880070005277 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 880070005278 starch binding outer membrane protein SusD; Region: SusD; cl17845 880070005279 starch binding outer membrane protein SusD; Region: SusD; cl17845 880070005280 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 880070005281 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 880070005282 THF binding site; other site 880070005283 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 880070005284 substrate binding site [chemical binding]; other site 880070005285 THF binding site; other site 880070005286 zinc-binding site [ion binding]; other site 880070005287 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 880070005288 Sulfatase; Region: Sulfatase; cl17466 880070005289 Planctomycete cytochrome C; Region: PSCyt1; pfam07635 880070005290 Protein of unknown function (DUF1549); Region: PSCyt2; pfam07583 880070005291 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 880070005292 Protein of unknown function (DUF1553); Region: PSD1; pfam07587 880070005293 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 880070005294 Domain of unknown function (DUF4221); Region: DUF4221; pfam13970 880070005295 Domain of unknown function (DUF4221); Region: DUF4221; pfam13970 880070005296 Domain of unknown function (DUF4221); Region: DUF4221; pfam13970 880070005297 Domain of unknown function (DUF4221); Region: DUF4221; pfam13970 880070005298 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 880070005299 salt bridge; other site 880070005300 non-specific DNA binding site [nucleotide binding]; other site 880070005301 sequence-specific DNA binding site [nucleotide binding]; other site 880070005302 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 880070005303 Ion channel; Region: Ion_trans_2; pfam07885 880070005304 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 880070005305 membrane-bound complex binding site; other site 880070005306 hinge residues; other site 880070005307 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 880070005308 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 880070005309 MutS domain I; Region: MutS_I; pfam01624 880070005310 MutS domain II; Region: MutS_II; pfam05188 880070005311 MutS domain III; Region: MutS_III; pfam05192 880070005312 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 880070005313 Walker A/P-loop; other site 880070005314 ATP binding site [chemical binding]; other site 880070005315 Q-loop/lid; other site 880070005316 ABC transporter signature motif; other site 880070005317 Walker B; other site 880070005318 D-loop; other site 880070005319 H-loop/switch region; other site 880070005320 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 880070005321 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880070005322 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 880070005323 dimer interface [polypeptide binding]; other site 880070005324 phosphorylation site [posttranslational modification] 880070005325 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 880070005326 ATP binding site [chemical binding]; other site 880070005327 Mg2+ binding site [ion binding]; other site 880070005328 G-X-G motif; other site 880070005329 Catalytic GIY-YIG domain of yeast structure-specific endonuclease subunit SLX1 and its homologs; Region: GIY-YIG_SLX1_like; cd10449 880070005330 GIY-YIG motif/motif A; other site 880070005331 putative active site [active] 880070005332 putative metal binding site [ion binding]; other site 880070005333 Catalytic GIY-YIG domain of yeast structure-specific endonuclease subunit SLX1 and its homologs; Region: GIY-YIG_SLX1_like; cd10449 880070005334 GIY-YIG motif/motif A; other site 880070005335 putative active site [active] 880070005336 putative metal binding site [ion binding]; other site 880070005337 Catalytic GIY-YIG domain of yeast structure-specific endonuclease subunit SLX1 and its homologs; Region: GIY-YIG_SLX1_like; cd10449 880070005338 GIY-YIG motif/motif A; other site 880070005339 putative active site [active] 880070005340 putative metal binding site [ion binding]; other site 880070005341 Catalytic GIY-YIG domain of yeast structure-specific endonuclease subunit SLX1 and its homologs; Region: GIY-YIG_SLX1_like; cd10449 880070005342 GIY-YIG motif/motif A; other site 880070005343 putative active site [active] 880070005344 putative metal binding site [ion binding]; other site 880070005345 Catalytic GIY-YIG domain of yeast structure-specific endonuclease subunit SLX1 and its homologs; Region: GIY-YIG_SLX1_like; cd10449 880070005346 GIY-YIG motif/motif A; other site 880070005347 putative active site [active] 880070005348 putative metal binding site [ion binding]; other site 880070005349 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 880070005350 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 880070005351 Fn3 associated; Region: Fn3_assoc; pfam13287 880070005352 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 880070005353 sugar binding site [chemical binding]; other site 880070005354 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 880070005355 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 880070005356 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 880070005357 active site 880070005358 metal binding site [ion binding]; metal-binding site 880070005359 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 880070005360 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 880070005361 dimerization interface [polypeptide binding]; other site 880070005362 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 880070005363 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 880070005364 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 880070005365 Cu(I) binding site [ion binding]; other site 880070005366 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 880070005367 YHYH protein; Region: YHYH; pfam14240 880070005368 YHYH protein; Region: YHYH; pfam14240 880070005369 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 880070005370 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 880070005371 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 880070005372 active site 880070005373 metal binding site [ion binding]; metal-binding site 880070005374 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 880070005375 2,3-diaminopropionate biosynthesis protein SbnA; Region: PLP_SbnA_fam; TIGR03945 880070005376 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 880070005377 dimer interface [polypeptide binding]; other site 880070005378 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880070005379 catalytic residue [active] 880070005380 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 880070005381 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 880070005382 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Y4yA; Region: PLPDE_III_Y4yA_like; cd06842 880070005383 dimer interface [polypeptide binding]; other site 880070005384 active site 880070005385 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 880070005386 catalytic residues [active] 880070005387 substrate binding site [chemical binding]; other site 880070005388 TIR domain; Region: TIR_2; pfam13676 880070005389 Piwi-like: PIWI domain. Domain found in proteins involved in RNA silencing. RNA silencing refers to a group of related gene-silencing mechanisms mediated by short RNA molecules, including siRNAs, miRNAs, and heterochromatin-related guide RNAs. The...; Region: Piwi-like; cl00628 880070005390 5' RNA guide strand anchoring site; other site 880070005391 active site 880070005392 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 880070005393 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 880070005394 RibD C-terminal domain; Region: RibD_C; cl17279 880070005395 Staphylococcal nuclease homologues; Region: SNc; smart00318 880070005396 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 880070005397 Catalytic site; other site 880070005398 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 880070005399 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 880070005400 Protein of unknown function (DUF3007); Region: DUF3007; pfam11460 880070005401 Domain of unknown function (DUF1772); Region: DUF1772; pfam08592 880070005402 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880070005403 NADH(P)-binding; Region: NAD_binding_10; pfam13460 880070005404 NAD(P) binding site [chemical binding]; other site 880070005405 active site 880070005406 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 880070005407 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 880070005408 A new structural DNA glycosylase containing HEAT-like repeats; Region: AlkD_like_1; cd07064 880070005409 active site 880070005410 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 880070005411 putative catalytic site [active] 880070005412 putative metal binding site [ion binding]; other site 880070005413 putative phosphate binding site [ion binding]; other site 880070005414 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 880070005415 putative catalytic site [active] 880070005416 putative phosphate binding site [ion binding]; other site 880070005417 putative metal binding site [ion binding]; other site 880070005418 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 880070005419 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 880070005420 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 880070005421 active site 880070005422 phosphorylation site [posttranslational modification] 880070005423 intermolecular recognition site; other site 880070005424 dimerization interface [polypeptide binding]; other site 880070005425 LytTr DNA-binding domain; Region: LytTR; smart00850 880070005426 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 880070005427 Family description; Region: VCBS; pfam13517 880070005428 Family description; Region: VCBS; pfam13517 880070005429 Family description; Region: VCBS; pfam13517 880070005430 Family description; Region: VCBS; pfam13517 880070005431 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 880070005432 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 880070005433 intersubunit interface [polypeptide binding]; other site 880070005434 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 880070005435 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 880070005436 ABC-ATPase subunit interface; other site 880070005437 dimer interface [polypeptide binding]; other site 880070005438 putative PBP binding regions; other site 880070005439 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 880070005440 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 880070005441 Walker A/P-loop; other site 880070005442 ATP binding site [chemical binding]; other site 880070005443 Q-loop/lid; other site 880070005444 ABC transporter signature motif; other site 880070005445 Walker B; other site 880070005446 D-loop; other site 880070005447 H-loop/switch region; other site 880070005448 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 880070005449 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 880070005450 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 880070005451 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 880070005452 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 880070005453 N-terminal plug; other site 880070005454 ligand-binding site [chemical binding]; other site 880070005455 Bacterial proteins similar to Porphyromonas gingivalis HmuY; Region: HmuY; cd12105 880070005456 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 880070005457 YHYH protein; Region: YHYH; pfam14240 880070005458 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 880070005459 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 880070005460 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK06816 880070005461 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 880070005462 dimer interface [polypeptide binding]; other site 880070005463 active site 880070005464 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 880070005465 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 880070005466 NADP binding site [chemical binding]; other site 880070005467 dimer interface [polypeptide binding]; other site 880070005468 Predicted transcriptional regulators [Transcription]; Region: COG1733 880070005469 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 880070005470 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 880070005471 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 880070005472 NADP binding site [chemical binding]; other site 880070005473 Ion channel; Region: Ion_trans_2; pfam07885 880070005474 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 880070005475 classical (c) SDRs; Region: SDR_c; cd05233 880070005476 NAD(P) binding site [chemical binding]; other site 880070005477 active site 880070005478 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 880070005479 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 880070005480 putative NAD(P) binding site [chemical binding]; other site 880070005481 active site 880070005482 putative substrate binding site [chemical binding]; other site 880070005483 GntP family permease; Region: GntP_permease; pfam02447 880070005484 fructuronate transporter; Provisional; Region: PRK10034; cl15264 880070005485 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 880070005486 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 880070005487 N-acetyl-D-glucosamine binding site [chemical binding]; other site 880070005488 catalytic residue [active] 880070005489 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 880070005490 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 880070005491 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 880070005492 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 880070005493 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070005494 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 880070005495 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 880070005496 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 880070005497 SurA N-terminal domain; Region: SurA_N; pfam09312 880070005498 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 880070005499 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 880070005500 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 880070005501 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 880070005502 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 880070005503 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 880070005504 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 880070005505 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 880070005506 anti sigma factor interaction site; other site 880070005507 regulatory phosphorylation site [posttranslational modification]; other site 880070005508 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 880070005509 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880070005510 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 880070005511 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 880070005512 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 880070005513 catalytic residue [active] 880070005514 Uncharacterized conserved protein [Function unknown]; Region: COG1434 880070005515 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 880070005516 putative active site [active] 880070005517 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 880070005518 DNA photolyase; Region: DNA_photolyase; pfam00875 880070005519 Family of unknown function (DUF490); Region: DUF490; pfam04357 880070005520 UGMP family protein; Validated; Region: PRK09604 880070005521 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 880070005522 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 880070005523 SmpB-tmRNA interface; other site 880070005524 NlpC/P60 family; Region: NLPC_P60; cl17555 880070005525 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 880070005526 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 880070005527 active site 880070005528 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 880070005529 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 880070005530 RNA binding site [nucleotide binding]; other site 880070005531 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 880070005532 RNA binding site [nucleotide binding]; other site 880070005533 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 880070005534 RNA binding site [nucleotide binding]; other site 880070005535 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 880070005536 RNA binding site [nucleotide binding]; other site 880070005537 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 880070005538 RNA binding site [nucleotide binding]; other site 880070005539 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 880070005540 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070005541 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 880070005542 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 880070005543 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 880070005544 cytochrome c-550; Provisional; Region: psbV; cl17239 880070005545 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 880070005546 Cytochrome c; Region: Cytochrom_C; pfam00034 880070005547 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 880070005548 heme-binding residues [chemical binding]; other site 880070005549 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 880070005550 molybdopterin cofactor binding site; other site 880070005551 The MopB_CT_PHLH CD includes a group of related uncharacterized putative hydrogenase-like homologs (PHLH) of molybdopterin binding proteins. This CD is of the PHLH region homologous to the conserved molybdopterin-binding C-terminal (MopB_CT) region...; Region: MopB_CT_PHLH; cd02784 880070005552 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 880070005553 4Fe-4S binding domain; Region: Fer4; cl02805 880070005554 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 880070005555 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 880070005556 Protein of unknown function (DUF3341); Region: DUF3341; pfam11821 880070005557 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 880070005558 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 880070005559 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 880070005560 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 880070005561 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 880070005562 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 880070005563 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 880070005564 protoheme IX farnesyltransferase; Region: cyoE_ctaB; TIGR01473 880070005565 UbiA prenyltransferase family; Region: UbiA; pfam01040 880070005566 Heme-copper oxidase subunit III subfamily. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane; Region: Heme_Cu_Oxidase_III_2; cd02865 880070005567 Subunit I/III interface [polypeptide binding]; other site 880070005568 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 880070005569 Subunit I/III interface [polypeptide binding]; other site 880070005570 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; pfam03626 880070005571 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 880070005572 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 880070005573 Cu(I) binding site [ion binding]; other site 880070005574 Protein of unknown function (DUF420); Region: DUF420; pfam04238 880070005575 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 880070005576 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 880070005577 dimer interface [polypeptide binding]; other site 880070005578 phosphorylation site [posttranslational modification] 880070005579 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 880070005580 ATP binding site [chemical binding]; other site 880070005581 Mg2+ binding site [ion binding]; other site 880070005582 G-X-G motif; other site 880070005583 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 880070005584 classical (c) SDRs; Region: SDR_c; cd05233 880070005585 NAD(P) binding site [chemical binding]; other site 880070005586 active site 880070005587 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 880070005588 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Provisional; Region: PRK02048 880070005589 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 880070005590 Protein of unknown function (DUF419); Region: DUF419; pfam04237 880070005591 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 880070005592 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880070005593 Walker A/P-loop; other site 880070005594 ATP binding site [chemical binding]; other site 880070005595 Q-loop/lid; other site 880070005596 ABC transporter signature motif; other site 880070005597 Walker B; other site 880070005598 D-loop; other site 880070005599 H-loop/switch region; other site 880070005600 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 880070005601 Domain of unknown function (DUF718); Region: DUF718; pfam05336 880070005602 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 880070005603 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 880070005604 DNA-binding site [nucleotide binding]; DNA binding site 880070005605 Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability; Region: PBP1_FucR_like; cd06276 880070005606 putative dimerization interface [polypeptide binding]; other site 880070005607 putative ligand binding site [chemical binding]; other site 880070005608 Transcriptional regulators [Transcription]; Region: PurR; COG1609 880070005609 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 880070005610 Na binding site [ion binding]; other site 880070005611 RNA polymerase sigma factor; Provisional; Region: PRK12513 880070005612 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880070005613 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 880070005614 DNA binding residues [nucleotide binding] 880070005615 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 880070005616 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 880070005617 minor groove reading motif; other site 880070005618 helix-hairpin-helix signature motif; other site 880070005619 substrate binding pocket [chemical binding]; other site 880070005620 active site 880070005621 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 880070005622 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 880070005623 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 880070005624 active site 880070005625 dimer interface [polypeptide binding]; other site 880070005626 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 880070005627 Ligand Binding Site [chemical binding]; other site 880070005628 Molecular Tunnel; other site 880070005629 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 880070005630 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 880070005631 gliding motility-associated lipoprotein GldB; Region: GldB_lipo; TIGR03514 880070005632 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 880070005633 Fasciclin domain; Region: Fasciclin; pfam02469 880070005634 Fasciclin domain; Region: Fasciclin; pfam02469 880070005635 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 880070005636 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 880070005637 SLBB domain; Region: SLBB; pfam10531 880070005638 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 880070005639 SLBB domain; Region: SLBB; pfam10531 880070005640 SLBB domain; Region: SLBB; pfam10531 880070005641 SLBB domain; Region: SLBB; pfam10531 880070005642 Chain length determinant protein; Region: Wzz; cl15801 880070005643 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 880070005644 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 880070005645 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 880070005646 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 880070005647 Probable Catalytic site; other site 880070005648 metal-binding site 880070005649 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 880070005650 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 880070005651 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 880070005652 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 880070005653 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 880070005654 trimer interface [polypeptide binding]; other site 880070005655 active site 880070005656 substrate binding site [chemical binding]; other site 880070005657 CoA binding site [chemical binding]; other site 880070005658 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 880070005659 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 880070005660 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_6; cd04955 880070005661 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 880070005662 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 880070005663 Bacterial sugar transferase; Region: Bac_transf; pfam02397 880070005664 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 880070005665 Ligand Binding Site [chemical binding]; other site 880070005666 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 880070005667 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 880070005668 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070005669 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070005670 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070005671 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 880070005672 starch binding outer membrane protein SusD; Region: SusD; cd08977 880070005673 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 880070005674 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 880070005675 Zn binding site [ion binding]; other site 880070005676 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 880070005677 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 880070005678 Nitrogen regulatory protein P-II; Region: P-II; smart00938 880070005679 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 880070005680 active site 880070005681 Predicted membrane protein [Function unknown]; Region: COG2259 880070005682 recombination protein F; Reviewed; Region: recF; PRK00064 880070005683 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880070005684 Walker A/P-loop; other site 880070005685 ATP binding site [chemical binding]; other site 880070005686 Q-loop/lid; other site 880070005687 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880070005688 Q-loop/lid; other site 880070005689 ABC transporter signature motif; other site 880070005690 Walker B; other site 880070005691 D-loop; other site 880070005692 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 880070005693 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 880070005694 tetramer interface [polypeptide binding]; other site 880070005695 TPP-binding site [chemical binding]; other site 880070005696 heterodimer interface [polypeptide binding]; other site 880070005697 phosphorylation loop region [posttranslational modification] 880070005698 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 880070005699 hydrophobic ligand binding site; other site 880070005700 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 880070005701 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880070005702 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 880070005703 DNA binding residues [nucleotide binding] 880070005704 FecR protein; Region: FecR; pfam04773 880070005705 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070005706 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 880070005707 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 880070005708 DNA-binding site [nucleotide binding]; DNA binding site 880070005709 UTRA domain; Region: UTRA; pfam07702 880070005710 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 880070005711 D-galactonate transporter; Region: 2A0114; TIGR00893 880070005712 putative substrate translocation pore; other site 880070005713 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cd00578 880070005714 L-arabinose isomerase [Carbohydrate transport and metabolism]; Region: AraA; COG2160 880070005715 hexamer (dimer of trimers) interface [polypeptide binding]; other site 880070005716 trimer interface [polypeptide binding]; other site 880070005717 substrate binding site [chemical binding]; other site 880070005718 Mn binding site [ion binding]; other site 880070005719 Sulfatase; Region: Sulfatase; cl17466 880070005720 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070005721 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 880070005722 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 880070005723 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 880070005724 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 880070005725 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 880070005726 GxxExxY protein; Region: GxxExxY; TIGR04256 880070005727 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 880070005728 active site 880070005729 DNA binding site [nucleotide binding] 880070005730 Int/Topo IB signature motif; other site 880070005731 Helix-turn-helix domain; Region: HTH_17; pfam12728 880070005732 D5 N terminal like; Region: D5_N; pfam08706 880070005733 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 880070005734 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 880070005735 GTPase Era; Reviewed; Region: era; PRK00089 880070005736 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 880070005737 G1 box; other site 880070005738 GTP/Mg2+ binding site [chemical binding]; other site 880070005739 Switch I region; other site 880070005740 G2 box; other site 880070005741 Switch II region; other site 880070005742 G3 box; other site 880070005743 G4 box; other site 880070005744 G5 box; other site 880070005745 KH domain; Region: KH_2; pfam07650 880070005746 GTP-binding protein Der; Reviewed; Region: PRK00093 880070005747 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 880070005748 G1 box; other site 880070005749 GTP/Mg2+ binding site [chemical binding]; other site 880070005750 Switch I region; other site 880070005751 G2 box; other site 880070005752 Switch II region; other site 880070005753 G3 box; other site 880070005754 G4 box; other site 880070005755 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 880070005756 G1 box; other site 880070005757 GTP/Mg2+ binding site [chemical binding]; other site 880070005758 Switch I region; other site 880070005759 G2 box; other site 880070005760 G3 box; other site 880070005761 Switch II region; other site 880070005762 G4 box; other site 880070005763 G5 box; other site 880070005764 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 880070005765 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 880070005766 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 880070005767 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880070005768 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 880070005769 DNA binding residues [nucleotide binding] 880070005770 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 880070005771 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 880070005772 active site 880070005773 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 880070005774 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 880070005775 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 880070005776 Predicted permeases [General function prediction only]; Region: COG0795 880070005777 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 880070005778 EamA-like transporter family; Region: EamA; pfam00892 880070005779 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14609 880070005780 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 880070005781 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 880070005782 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 880070005783 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 880070005784 PYR/PP interface [polypeptide binding]; other site 880070005785 dimer interface [polypeptide binding]; other site 880070005786 TPP binding site [chemical binding]; other site 880070005787 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 880070005788 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 880070005789 TPP-binding site [chemical binding]; other site 880070005790 dimer interface [polypeptide binding]; other site 880070005791 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 880070005792 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 880070005793 putative valine binding site [chemical binding]; other site 880070005794 dimer interface [polypeptide binding]; other site 880070005795 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 880070005796 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 880070005797 ketol-acid reductoisomerase; Region: ilvC; TIGR00465 880070005798 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 880070005799 2-isopropylmalate synthase; Validated; Region: PRK00915 880070005800 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 880070005801 active site 880070005802 catalytic residues [active] 880070005803 metal binding site [ion binding]; metal-binding site 880070005804 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 880070005805 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 880070005806 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 880070005807 substrate binding site [chemical binding]; other site 880070005808 ligand binding site [chemical binding]; other site 880070005809 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 880070005810 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 880070005811 hypothetical protein; Provisional; Region: PRK14812 880070005812 substrate binding site [chemical binding]; other site 880070005813 (R)-citramalate synthase; Provisional; Region: PRK09389 880070005814 Leptospira interrogans citramalate synthase (CMS) and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_CMS; cd07945 880070005815 active site 880070005816 catalytic residues [active] 880070005817 metal binding site [ion binding]; metal-binding site 880070005818 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 880070005819 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 880070005820 tartrate dehydrogenase; Region: TTC; TIGR02089 880070005821 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880070005822 Enoyl-(Acyl carrier protein) reductase; Region: adh_short_C2; pfam13561 880070005823 NAD(P) binding site [chemical binding]; other site 880070005824 active site 880070005825 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 880070005826 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 880070005827 Walker A/P-loop; other site 880070005828 ATP binding site [chemical binding]; other site 880070005829 Q-loop/lid; other site 880070005830 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 880070005831 Q-loop/lid; other site 880070005832 ABC transporter signature motif; other site 880070005833 Walker B; other site 880070005834 D-loop; other site 880070005835 H-loop/switch region; other site 880070005836 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 880070005837 Flavoprotein; Region: Flavoprotein; pfam02441 880070005838 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 880070005839 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 880070005840 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880070005841 OstA-like protein; Region: OstA_2; pfam13100 880070005842 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 880070005843 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 880070005844 Ligand Binding Site [chemical binding]; other site 880070005845 TilS substrate C-terminal domain; Region: TilS_C; smart00977 880070005846 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 880070005847 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 880070005848 ligand binding site [chemical binding]; other site 880070005849 flexible hinge region; other site 880070005850 malate dehydrogenase; Reviewed; Region: PRK06223 880070005851 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 880070005852 dimer interface [polypeptide binding]; other site 880070005853 NAD(P) binding site [chemical binding]; other site 880070005854 tetramer (dimer of dimers) interface [polypeptide binding]; other site 880070005855 substrate binding site [chemical binding]; other site 880070005856 mechanosensitive channel MscS; Provisional; Region: PRK10334 880070005857 Mechanosensitive ion channel; Region: MS_channel; pfam00924 880070005858 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 880070005859 classical (c) SDRs; Region: SDR_c; cd05233 880070005860 NAD(P) binding site [chemical binding]; other site 880070005861 active site 880070005862 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 880070005863 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 880070005864 HlyD family secretion protein; Region: HlyD_3; pfam13437 880070005865 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 880070005866 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 880070005867 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 880070005868 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 880070005869 Walker A/P-loop; other site 880070005870 ATP binding site [chemical binding]; other site 880070005871 Q-loop/lid; other site 880070005872 ABC transporter signature motif; other site 880070005873 Walker B; other site 880070005874 D-loop; other site 880070005875 H-loop/switch region; other site 880070005876 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 880070005877 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 880070005878 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 880070005879 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 880070005880 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 880070005881 glycerol kinase; Provisional; Region: glpK; PRK00047 880070005882 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 880070005883 N- and C-terminal domain interface [polypeptide binding]; other site 880070005884 active site 880070005885 MgATP binding site [chemical binding]; other site 880070005886 catalytic site [active] 880070005887 metal binding site [ion binding]; metal-binding site 880070005888 glycerol binding site [chemical binding]; other site 880070005889 homotetramer interface [polypeptide binding]; other site 880070005890 homodimer interface [polypeptide binding]; other site 880070005891 FBP binding site [chemical binding]; other site 880070005892 protein IIAGlc interface [polypeptide binding]; other site 880070005893 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 880070005894 amphipathic channel; other site 880070005895 Asn-Pro-Ala signature motifs; other site 880070005896 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 880070005897 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 880070005898 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 880070005899 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 880070005900 rod shape-determining protein MreC; Provisional; Region: PRK13922 880070005901 rod shape-determining protein MreC; Region: MreC; pfam04085 880070005902 rod shape-determining protein MreB; Provisional; Region: PRK13927 880070005903 MreB and similar proteins; Region: MreB_like; cd10225 880070005904 nucleotide binding site [chemical binding]; other site 880070005905 Mg binding site [ion binding]; other site 880070005906 putative protofilament interaction site [polypeptide binding]; other site 880070005907 RodZ interaction site [polypeptide binding]; other site 880070005908 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 880070005909 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 880070005910 purine monophosphate binding site [chemical binding]; other site 880070005911 dimer interface [polypeptide binding]; other site 880070005912 putative catalytic residues [active] 880070005913 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 880070005914 Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]; Region: PurN; COG0299 880070005915 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 880070005916 active site 880070005917 substrate binding site [chemical binding]; other site 880070005918 cosubstrate binding site; other site 880070005919 catalytic site [active] 880070005920 Glycosyl hydrolase families 32 and 68, which for the clan GH-J; Region: GH_J; cd08979 880070005921 active site 880070005922 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 880070005923 UbiA prenyltransferase family; Region: UbiA; pfam01040 880070005924 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 880070005925 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 880070005926 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 880070005927 CcmE; Region: CcmE; cl00994 880070005928 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 880070005929 CcmB protein; Region: CcmB; cl17444 880070005930 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 880070005931 inhibitor site; inhibition site 880070005932 active site 880070005933 dimer interface [polypeptide binding]; other site 880070005934 catalytic residue [active] 880070005935 seryl-tRNA synthetase; Provisional; Region: PRK05431 880070005936 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 880070005937 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 880070005938 dimer interface [polypeptide binding]; other site 880070005939 active site 880070005940 motif 1; other site 880070005941 motif 2; other site 880070005942 motif 3; other site 880070005943 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 880070005944 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 880070005945 classical (c) SDRs; Region: SDR_c; cd05233 880070005946 NAD(P) binding site [chemical binding]; other site 880070005947 active site 880070005948 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 880070005949 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 880070005950 Transcriptional regulators [Transcription]; Region: FadR; COG2186 880070005951 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 880070005952 DNA-binding site [nucleotide binding]; DNA binding site 880070005953 FCD domain; Region: FCD; pfam07729 880070005954 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070005955 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070005956 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070005957 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 880070005958 starch binding outer membrane protein SusD; Region: SusD; cd08977 880070005959 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 880070005960 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 880070005961 Asp-box motif; other site 880070005962 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 880070005963 active site 880070005964 catalytic triad [active] 880070005965 oxyanion hole [active] 880070005966 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 880070005967 BNR repeat-like domain; Region: BNR_2; pfam13088 880070005968 catalytic site [active] 880070005969 Asp-box motif; other site 880070005970 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 880070005971 catalytic site [active] 880070005972 BNR repeat-like domain; Region: BNR_2; pfam13088 880070005973 Asp-box motif; other site 880070005974 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070005975 Sulfatase; Region: Sulfatase; pfam00884 880070005976 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 880070005977 BNR repeat-like domain; Region: BNR_2; pfam13088 880070005978 catalytic site [active] 880070005979 Asp-box motif; other site 880070005980 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 880070005981 active site 880070005982 catalytic triad [active] 880070005983 oxyanion hole [active] 880070005984 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 880070005985 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 880070005986 active site 880070005987 Zn binding site [ion binding]; other site 880070005988 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 880070005989 classical (c) SDRs; Region: SDR_c; cd05233 880070005990 NAD(P) binding site [chemical binding]; other site 880070005991 active site 880070005992 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 880070005993 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 880070005994 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 880070005995 catalytic residue [active] 880070005996 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 880070005997 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 880070005998 inhibitor site; inhibition site 880070005999 active site 880070006000 dimer interface [polypeptide binding]; other site 880070006001 catalytic residue [active] 880070006002 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 880070006003 homotrimer interaction site [polypeptide binding]; other site 880070006004 putative active site [active] 880070006005 Uncharacterized conserved protein [Function unknown]; Region: COG5476 880070006006 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 880070006007 MlrC C-terminus; Region: MlrC_C; pfam07171 880070006008 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 880070006009 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 880070006010 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 880070006011 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 880070006012 cyclically-permuted mutarotase family protein; Region: mutarot_permut; TIGR03548 880070006013 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u3; cd11495 880070006014 putative transporter; Provisional; Region: PRK10484 880070006015 Na binding site [ion binding]; other site 880070006016 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 880070006017 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 880070006018 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 880070006019 protein binding site [polypeptide binding]; other site 880070006020 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 880070006021 protein binding site [polypeptide binding]; other site 880070006022 Catalytic GIY-YIG domain of yeast structure-specific endonuclease subunit SLX1 and its homologs; Region: GIY-YIG_SLX1_like; cd10449 880070006023 GIY-YIG motif/motif A; other site 880070006024 putative active site [active] 880070006025 putative metal binding site [ion binding]; other site 880070006026 Catalytic GIY-YIG domain of yeast structure-specific endonuclease subunit SLX1 and its homologs; Region: GIY-YIG_SLX1_like; cd10449 880070006027 GIY-YIG motif/motif A; other site 880070006028 putative active site [active] 880070006029 putative metal binding site [ion binding]; other site 880070006030 Catalytic GIY-YIG domain of yeast structure-specific endonuclease subunit SLX1 and its homologs; Region: GIY-YIG_SLX1_like; cd10449 880070006031 GIY-YIG motif/motif A; other site 880070006032 putative active site [active] 880070006033 putative metal binding site [ion binding]; other site 880070006034 Catalytic GIY-YIG domain of yeast structure-specific endonuclease subunit SLX1 and its homologs; Region: GIY-YIG_SLX1_like; cd10449 880070006035 GIY-YIG motif/motif A; other site 880070006036 putative active site [active] 880070006037 putative metal binding site [ion binding]; other site 880070006038 Catalytic GIY-YIG domain of yeast structure-specific endonuclease subunit SLX1 and its homologs; Region: GIY-YIG_SLX1_like; cd10449 880070006039 GIY-YIG motif/motif A; other site 880070006040 putative active site [active] 880070006041 putative metal binding site [ion binding]; other site 880070006042 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 880070006043 GIY-YIG motif/motif A; other site 880070006044 active site 880070006045 catalytic site [active] 880070006046 metal binding site [ion binding]; metal-binding site 880070006047 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 880070006048 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 880070006049 DNA binding residues [nucleotide binding] 880070006050 FecR protein; Region: FecR; pfam04773 880070006051 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070006052 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070006053 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070006054 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 880070006055 starch binding outer membrane protein SusD; Region: SusD; cd08977 880070006056 Sulfatase; Region: Sulfatase; pfam00884 880070006057 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070006058 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070006059 Sulfatase; Region: Sulfatase; cl17466 880070006060 Alginate Lyase A1-III; enzymatically depolymerizes alginate, a complex copolymer of beta-D-mannuronate and alpha-L-guluronate, by cleaving the beta-(1,4) glycosidic bond; Region: AlgLyase; cl00179 880070006061 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 880070006062 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 880070006063 N-terminal plug; other site 880070006064 ligand-binding site [chemical binding]; other site 880070006065 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 880070006066 Zn binding site [ion binding]; other site 880070006067 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 880070006068 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_9; cd07245 880070006069 dimer interface [polypeptide binding]; other site 880070006070 putative metal binding site [ion binding]; other site 880070006071 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 880070006072 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 880070006073 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 880070006074 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 880070006075 Catalytic dyad [active] 880070006076 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 880070006077 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 880070006078 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 880070006079 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 880070006080 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 880070006081 active site 880070006082 catalytic residues [active] 880070006083 metal binding site [ion binding]; metal-binding site 880070006084 C-N hydrolase family amidase; Provisional; Region: PRK10438 880070006085 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 880070006086 putative active site [active] 880070006087 catalytic triad [active] 880070006088 dimer interface [polypeptide binding]; other site 880070006089 multimer interface [polypeptide binding]; other site 880070006090 Family description; Region: VCBS; pfam13517 880070006091 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880070006092 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 880070006093 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 880070006094 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 880070006095 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 880070006096 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 880070006097 DinB superfamily; Region: DinB_2; pfam12867 880070006098 Protein of unknown function (DUF1593); Region: DUF1593; pfam07632 880070006099 MerC mercury resistance protein; Region: MerC; pfam03203 880070006100 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 880070006101 active site 880070006102 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 880070006103 Outer membrane efflux protein; Region: OEP; pfam02321 880070006104 Outer membrane efflux protein; Region: OEP; pfam02321 880070006105 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 880070006106 HlyD family secretion protein; Region: HlyD_3; pfam13437 880070006107 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 880070006108 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 880070006109 FtsX-like permease family; Region: FtsX; pfam02687 880070006110 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 880070006111 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 880070006112 Walker A/P-loop; other site 880070006113 ATP binding site [chemical binding]; other site 880070006114 Q-loop/lid; other site 880070006115 ABC transporter signature motif; other site 880070006116 Walker B; other site 880070006117 D-loop; other site 880070006118 H-loop/switch region; other site 880070006119 Histidine kinase; Region: His_kinase; pfam06580 880070006120 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 880070006121 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 880070006122 active site 880070006123 phosphorylation site [posttranslational modification] 880070006124 intermolecular recognition site; other site 880070006125 dimerization interface [polypeptide binding]; other site 880070006126 LytTr DNA-binding domain; Region: LytTR; smart00850 880070006127 Histidine kinase; Region: His_kinase; pfam06580 880070006128 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 880070006129 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 880070006130 active site 880070006131 phosphorylation site [posttranslational modification] 880070006132 intermolecular recognition site; other site 880070006133 dimerization interface [polypeptide binding]; other site 880070006134 LytTr DNA-binding domain; Region: LytTR; pfam04397 880070006135 hypothetical protein; Validated; Region: PRK08245 880070006136 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 880070006137 Aconitate hydratase 2 N-terminus; Region: Aconitase_2_N; pfam06434 880070006138 substrate binding site [chemical binding]; other site 880070006139 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 880070006140 substrate binding site [chemical binding]; other site 880070006141 ligand binding site [chemical binding]; other site 880070006142 Putative esterase; Region: Esterase; pfam00756 880070006143 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4947 880070006144 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 880070006145 Protein of unknown function (DUF3500); Region: DUF3500; pfam12006 880070006146 Domain of unknown function (DUF4386); Region: DUF4386; pfam14329 880070006147 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 880070006148 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 880070006149 Amidohydrolase; Region: Amidohydro_4; pfam13147 880070006150 active site 880070006151 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 880070006152 active site 880070006153 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 880070006154 catalytic tetrad [active] 880070006155 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 880070006156 Ligand Binding Site [chemical binding]; other site 880070006157 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 880070006158 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 880070006159 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 880070006160 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 880070006161 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 880070006162 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 880070006163 E3 interaction surface; other site 880070006164 lipoyl attachment site [posttranslational modification]; other site 880070006165 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 880070006166 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 880070006167 E3 interaction surface; other site 880070006168 lipoyl attachment site [posttranslational modification]; other site 880070006169 e3 binding domain; Region: E3_binding; pfam02817 880070006170 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 880070006171 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 880070006172 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 880070006173 TPP-binding site [chemical binding]; other site 880070006174 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 880070006175 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880070006176 NADH(P)-binding; Region: NAD_binding_10; pfam13460 880070006177 NAD(P) binding site [chemical binding]; other site 880070006178 active site 880070006179 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 880070006180 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 880070006181 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_5; cd04962 880070006182 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 880070006183 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 880070006184 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 880070006185 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 880070006186 Beta-lactamase; Region: Beta-lactamase; cl17358 880070006187 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 880070006188 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 880070006189 ATP binding site [chemical binding]; other site 880070006190 Mg2+ binding site [ion binding]; other site 880070006191 G-X-G motif; other site 880070006192 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 880070006193 ATP binding site [chemical binding]; other site 880070006194 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 880070006195 Rhomboid family; Region: Rhomboid; cl11446 880070006196 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 880070006197 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 880070006198 Bacterial transcriptional repressor; Region: TetR; pfam13972 880070006199 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 880070006200 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 880070006201 FeS/SAM binding site; other site 880070006202 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070006203 Sulfatase; Region: Sulfatase; pfam00884 880070006204 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 880070006205 Clp amino terminal domain; Region: Clp_N; pfam02861 880070006206 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 880070006207 Walker A motif; other site 880070006208 ATP binding site [chemical binding]; other site 880070006209 Walker B motif; other site 880070006210 arginine finger; other site 880070006211 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 880070006212 Walker A motif; other site 880070006213 ATP binding site [chemical binding]; other site 880070006214 Walker B motif; other site 880070006215 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 880070006216 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070006217 Sulfatase; Region: Sulfatase; pfam00884 880070006218 SnoaL-like domain; Region: SnoaL_2; pfam12680 880070006219 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 880070006220 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 880070006221 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 880070006222 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 880070006223 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 880070006224 motif II; other site 880070006225 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 880070006226 Domon-like ligand-binding domains; Region: DOMON_like; cl14783 880070006227 putative ligand binding site [chemical binding]; other site 880070006228 NlpE N-terminal domain; Region: NlpE; pfam04170 880070006229 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 880070006230 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880070006231 NAD(P) binding site [chemical binding]; other site 880070006232 active site 880070006233 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 880070006234 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 880070006235 substrate-cofactor binding pocket; other site 880070006236 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880070006237 catalytic residue [active] 880070006238 Uncharacterized conserved protein [Function unknown]; Region: COG1624 880070006239 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 880070006240 dihydropteroate synthase; Region: DHPS; TIGR01496 880070006241 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 880070006242 substrate binding pocket [chemical binding]; other site 880070006243 dimer interface [polypeptide binding]; other site 880070006244 inhibitor binding site; inhibition site 880070006245 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 880070006246 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 880070006247 shikimate kinase; Reviewed; Region: aroK; PRK00131 880070006248 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 880070006249 ADP binding site [chemical binding]; other site 880070006250 magnesium binding site [ion binding]; other site 880070006251 putative shikimate binding site; other site 880070006252 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 880070006253 prolyl-tRNA synthetase; Provisional; Region: PRK08661 880070006254 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_arch_euk; cd00778 880070006255 dimer interface [polypeptide binding]; other site 880070006256 motif 1; other site 880070006257 active site 880070006258 motif 2; other site 880070006259 motif 3; other site 880070006260 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in...; Region: ProRS_anticodon_zinc; cd00862 880070006261 anticodon binding site; other site 880070006262 zinc-binding site [ion binding]; other site 880070006263 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 880070006264 hypothetical protein; Provisional; Region: PRK13665 880070006265 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 880070006266 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 880070006267 tRNA; other site 880070006268 putative tRNA binding site [nucleotide binding]; other site 880070006269 putative NADP binding site [chemical binding]; other site 880070006270 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 880070006271 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 880070006272 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 880070006273 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N_2; pfam13588 880070006274 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 880070006275 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 880070006276 ligand binding site [chemical binding]; other site 880070006277 flexible hinge region; other site 880070006278 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 880070006279 putative switch regulator; other site 880070006280 non-specific DNA interactions [nucleotide binding]; other site 880070006281 DNA binding site [nucleotide binding] 880070006282 sequence specific DNA binding site [nucleotide binding]; other site 880070006283 putative cAMP binding site [chemical binding]; other site 880070006284 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 880070006285 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 880070006286 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 880070006287 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 880070006288 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 880070006289 active site 880070006290 catalytic triad [active] 880070006291 oxyanion hole [active] 880070006292 switch loop; other site 880070006293 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 880070006294 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 880070006295 Walker A/P-loop; other site 880070006296 ATP binding site [chemical binding]; other site 880070006297 Q-loop/lid; other site 880070006298 ABC transporter signature motif; other site 880070006299 Walker B; other site 880070006300 D-loop; other site 880070006301 H-loop/switch region; other site 880070006302 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 880070006303 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 880070006304 FtsX-like permease family; Region: FtsX; pfam02687 880070006305 Transcriptional regulators [Transcription]; Region: MarR; COG1846 880070006306 MarR family; Region: MarR_2; pfam12802 880070006307 Uncharacterized conserved protein [Function unknown]; Region: COG2968 880070006308 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 880070006309 Conserved hypothetical protein (DUF2461); Region: DUF2461; pfam09365 880070006310 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 880070006311 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 880070006312 active site 880070006313 motif I; other site 880070006314 motif II; other site 880070006315 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 880070006316 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 880070006317 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 880070006318 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 880070006319 hexamer interface [polypeptide binding]; other site 880070006320 ligand binding site [chemical binding]; other site 880070006321 putative active site [active] 880070006322 NAD(P) binding site [chemical binding]; other site 880070006323 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 880070006324 tetramer interface [polypeptide binding]; other site 880070006325 TPP-binding site [chemical binding]; other site 880070006326 heterodimer interface [polypeptide binding]; other site 880070006327 phosphorylation loop region [posttranslational modification] 880070006328 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 880070006329 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 880070006330 PYR/PP interface [polypeptide binding]; other site 880070006331 dimer interface [polypeptide binding]; other site 880070006332 TPP binding site [chemical binding]; other site 880070006333 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 880070006334 Acyl-protein synthetase, LuxE; Region: LuxE; pfam04443 880070006335 Response regulator receiver domain; Region: Response_reg; pfam00072 880070006336 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 880070006337 active site 880070006338 phosphorylation site [posttranslational modification] 880070006339 intermolecular recognition site; other site 880070006340 dimerization interface [polypeptide binding]; other site 880070006341 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 880070006342 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 880070006343 Walker A motif; other site 880070006344 ATP binding site [chemical binding]; other site 880070006345 Walker B motif; other site 880070006346 arginine finger; other site 880070006347 Protein of unknown function (DUF3109); Region: DUF3109; pfam11307 880070006348 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 880070006349 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 880070006350 hinge; other site 880070006351 active site 880070006352 Domain of unknown function (DUF4290); Region: DUF4290; pfam14123 880070006353 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 880070006354 Part of AAA domain; Region: AAA_19; pfam13245 880070006355 Family description; Region: UvrD_C_2; pfam13538 880070006356 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 880070006357 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 880070006358 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 880070006359 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 880070006360 putative acyl-acceptor binding pocket; other site 880070006361 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 880070006362 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880070006363 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 880070006364 DNA binding residues [nucleotide binding] 880070006365 mycothiol system anti-sigma-R factor; Region: antisig_RsrA; cl15806 880070006366 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 880070006367 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 880070006368 catalytic site [active] 880070006369 G-X2-G-X-G-K; other site 880070006370 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 880070006371 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 880070006372 active site 880070006373 (T/H)XGH motif; other site 880070006374 PAP2, haloperoxidase_like subfamily. Haloperoxidases catalyze the oxidation of halides such as bromide or chloride by hydrogen peroxide, which results in subsequent halogenation of organic substrates, or halide-assisted disproportionation of hydrogen...; Region: PAP2_haloperoxidase; cd03398 880070006375 active site 880070006376 PAP2, haloperoxidase_like subfamily. Haloperoxidases catalyze the oxidation of halides such as bromide or chloride by hydrogen peroxide, which results in subsequent halogenation of organic substrates, or halide-assisted disproportionation of hydrogen...; Region: PAP2_haloperoxidase; cd03398 880070006377 active site 880070006378 Family description; Region: VCBS; pfam13517 880070006379 Family description; Region: VCBS; pfam13517 880070006380 Family description; Region: VCBS; pfam13517 880070006381 Family description; Region: VCBS; pfam13517 880070006382 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 880070006383 Family description; Region: VCBS; pfam13517 880070006384 Family description; Region: VCBS; pfam13517 880070006385 Family description; Region: VCBS; pfam13517 880070006386 Family description; Region: VCBS; pfam13517 880070006387 starch binding outer membrane protein SusD; Region: SusD; cl17845 880070006388 SusD family; Region: SusD; pfam07980 880070006389 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070006390 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070006391 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070006392 ribosome recycling factor; Reviewed; Region: frr; PRK00083 880070006393 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 880070006394 hinge region; other site 880070006395 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 880070006396 putative nucleotide binding site [chemical binding]; other site 880070006397 uridine monophosphate binding site [chemical binding]; other site 880070006398 homohexameric interface [polypeptide binding]; other site 880070006399 Peptidase family M1; Region: Peptidase_M1; pfam01433 880070006400 Peptidase M1 family Aminopeptidase N; Region: M1_APN_4; cd09603 880070006401 Zn binding site [ion binding]; other site 880070006402 elongation factor Tu; Reviewed; Region: PRK12735 880070006403 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 880070006404 G1 box; other site 880070006405 GEF interaction site [polypeptide binding]; other site 880070006406 GTP/Mg2+ binding site [chemical binding]; other site 880070006407 Switch I region; other site 880070006408 G2 box; other site 880070006409 G3 box; other site 880070006410 Switch II region; other site 880070006411 G4 box; other site 880070006412 G5 box; other site 880070006413 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 880070006414 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 880070006415 Antibiotic Binding Site [chemical binding]; other site 880070006416 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 880070006417 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 880070006418 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 880070006419 putative homodimer interface [polypeptide binding]; other site 880070006420 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 880070006421 heterodimer interface [polypeptide binding]; other site 880070006422 homodimer interface [polypeptide binding]; other site 880070006423 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 880070006424 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 880070006425 23S rRNA interface [nucleotide binding]; other site 880070006426 L7/L12 interface [polypeptide binding]; other site 880070006427 putative thiostrepton binding site; other site 880070006428 L25 interface [polypeptide binding]; other site 880070006429 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 880070006430 mRNA/rRNA interface [nucleotide binding]; other site 880070006431 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 880070006432 23S rRNA interface [nucleotide binding]; other site 880070006433 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 880070006434 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 880070006435 core dimer interface [polypeptide binding]; other site 880070006436 peripheral dimer interface [polypeptide binding]; other site 880070006437 L10 interface [polypeptide binding]; other site 880070006438 L11 interface [polypeptide binding]; other site 880070006439 putative EF-Tu interaction site [polypeptide binding]; other site 880070006440 putative EF-G interaction site [polypeptide binding]; other site 880070006441 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; pfam04563 880070006442 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 880070006443 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 880070006444 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 880070006445 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 880070006446 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 880070006447 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 880070006448 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 880070006449 RPB3 interaction site [polypeptide binding]; other site 880070006450 RPB1 interaction site [polypeptide binding]; other site 880070006451 RPB11 interaction site [polypeptide binding]; other site 880070006452 RPB10 interaction site [polypeptide binding]; other site 880070006453 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 880070006454 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 880070006455 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 880070006456 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 880070006457 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 880070006458 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 880070006459 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 880070006460 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 880070006461 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 880070006462 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 880070006463 DNA binding site [nucleotide binding] 880070006464 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 880070006465 Protein of unknown function (DUF3467); Region: DUF3467; pfam11950 880070006466 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 880070006467 S17 interaction site [polypeptide binding]; other site 880070006468 S8 interaction site; other site 880070006469 16S rRNA interaction site [nucleotide binding]; other site 880070006470 streptomycin interaction site [chemical binding]; other site 880070006471 23S rRNA interaction site [nucleotide binding]; other site 880070006472 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 880070006473 30S ribosomal protein S7; Validated; Region: PRK05302 880070006474 elongation factor G; Reviewed; Region: PRK12739 880070006475 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 880070006476 G1 box; other site 880070006477 putative GEF interaction site [polypeptide binding]; other site 880070006478 GTP/Mg2+ binding site [chemical binding]; other site 880070006479 Switch I region; other site 880070006480 G2 box; other site 880070006481 G3 box; other site 880070006482 Switch II region; other site 880070006483 G4 box; other site 880070006484 G5 box; other site 880070006485 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 880070006486 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 880070006487 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 880070006488 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 880070006489 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 880070006490 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 880070006491 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 880070006492 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 880070006493 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 880070006494 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 880070006495 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 880070006496 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 880070006497 putative translocon binding site; other site 880070006498 protein-rRNA interface [nucleotide binding]; other site 880070006499 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 880070006500 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 880070006501 G-X-X-G motif; other site 880070006502 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 880070006503 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 880070006504 23S rRNA interface [nucleotide binding]; other site 880070006505 5S rRNA interface [nucleotide binding]; other site 880070006506 putative antibiotic binding site [chemical binding]; other site 880070006507 L25 interface [polypeptide binding]; other site 880070006508 L27 interface [polypeptide binding]; other site 880070006509 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 880070006510 23S rRNA interface [nucleotide binding]; other site 880070006511 putative translocon interaction site; other site 880070006512 signal recognition particle (SRP54) interaction site; other site 880070006513 L23 interface [polypeptide binding]; other site 880070006514 trigger factor interaction site; other site 880070006515 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 880070006516 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 880070006517 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 880070006518 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 880070006519 RNA binding site [nucleotide binding]; other site 880070006520 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 880070006521 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 880070006522 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 880070006523 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 880070006524 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 880070006525 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 880070006526 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 880070006527 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 880070006528 Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of the large subunit. L18 binds 5S rRNA and induces a conformational change that stimulates the binding of L5 to 5S rRNA. Association of 5S rRNA with 23S rRNA...; Region: Ribosomal_L18_L5e; cd00432 880070006529 5S rRNA interface [nucleotide binding]; other site 880070006530 L27 interface [polypeptide binding]; other site 880070006531 23S rRNA interface [nucleotide binding]; other site 880070006532 L5 interface [polypeptide binding]; other site 880070006533 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 880070006534 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 880070006535 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 880070006536 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 880070006537 23S rRNA binding site [nucleotide binding]; other site 880070006538 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 880070006539 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 880070006540 SecY translocase; Region: SecY; pfam00344 880070006541 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 880070006542 active site 880070006543 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 880070006544 rRNA binding site [nucleotide binding]; other site 880070006545 predicted 30S ribosome binding site; other site 880070006546 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 880070006547 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 880070006548 30S ribosomal protein S13; Region: bact_S13; TIGR03631 880070006549 30S ribosomal protein S11; Validated; Region: PRK05309 880070006550 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 880070006551 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 880070006552 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 880070006553 RNA binding surface [nucleotide binding]; other site 880070006554 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 880070006555 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 880070006556 alphaNTD - beta interaction site [polypeptide binding]; other site 880070006557 alphaNTD homodimer interface [polypeptide binding]; other site 880070006558 alphaNTD - beta' interaction site [polypeptide binding]; other site 880070006559 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 880070006560 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 880070006561 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 880070006562 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 880070006563 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 880070006564 catalytic site [active] 880070006565 subunit interface [polypeptide binding]; other site 880070006566 enolase; Provisional; Region: eno; PRK00077 880070006567 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 880070006568 dimer interface [polypeptide binding]; other site 880070006569 metal binding site [ion binding]; metal-binding site 880070006570 substrate binding pocket [chemical binding]; other site 880070006571 serine O-acetyltransferase; Region: cysE; TIGR01172 880070006572 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 880070006573 trimer interface [polypeptide binding]; other site 880070006574 active site 880070006575 substrate binding site [chemical binding]; other site 880070006576 CoA binding site [chemical binding]; other site 880070006577 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 880070006578 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 880070006579 dimer interface [polypeptide binding]; other site 880070006580 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880070006581 catalytic residue [active] 880070006582 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 880070006583 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 880070006584 active site 880070006585 metal binding site [ion binding]; metal-binding site 880070006586 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 880070006587 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 880070006588 active site 880070006589 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 880070006590 Predicted transcriptional regulator [Transcription]; Region: COG2378 880070006591 HTH domain; Region: HTH_11; pfam08279 880070006592 WYL domain; Region: WYL; pfam13280 880070006593 DinB family; Region: DinB; cl17821 880070006594 DinB superfamily; Region: DinB_2; pfam12867 880070006595 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 880070006596 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 880070006597 dimer interface [polypeptide binding]; other site 880070006598 putative anticodon binding site; other site 880070006599 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 880070006600 motif 1; other site 880070006601 active site 880070006602 motif 2; other site 880070006603 motif 3; other site 880070006604 Proline dehydrogenase; Region: Pro_dh; cl03282 880070006605 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cl00226 880070006606 active site 880070006607 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 880070006608 Chorismate mutase type II; Region: CM_2; smart00830 880070006609 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 880070006610 active site 880070006611 dimer interface [polypeptide binding]; other site 880070006612 metal binding site [ion binding]; metal-binding site 880070006613 5-enolpyruvylshikimate-3-phosphate synthase [Amino acid transport and metabolism]; Region: AroA; COG0128 880070006614 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 880070006615 hinge; other site 880070006616 active site 880070006617 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 880070006618 Prephenate dehydratase; Region: PDT; pfam00800 880070006619 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 880070006620 putative L-Phe binding site [chemical binding]; other site 880070006621 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 880070006622 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 880070006623 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880070006624 homodimer interface [polypeptide binding]; other site 880070006625 catalytic residue [active] 880070006626 prephenate dehydrogenase; Validated; Region: PRK08507 880070006627 Prephenate dehydrogenase; Region: PDH; pfam02153 880070006628 Amidinotransferase; Region: Amidinotransf; cl12043 880070006629 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 880070006630 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 880070006631 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 880070006632 active site 880070006633 metal binding site [ion binding]; metal-binding site 880070006634 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 880070006635 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 880070006636 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 880070006637 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 880070006638 FOG: WD40 repeat [General function prediction only]; Region: COG2319 880070006639 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 880070006640 structural tetrad; other site 880070006641 DivIVA protein; Region: DivIVA; pfam05103 880070006642 DivIVA domain; Region: DivI1A_domain; TIGR03544 880070006643 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 880070006644 Dihydroneopterin aldolase; Region: FolB; pfam02152 880070006645 active site 880070006646 Domain of unknown function (DUF4268); Region: DUF4268; pfam14088 880070006647 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 880070006648 Protein of unknown function (DUF1232); Region: DUF1232; pfam06803 880070006649 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 880070006650 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 880070006651 NAD binding site [chemical binding]; other site 880070006652 active site 880070006653 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 880070006654 putative active site [active] 880070006655 dimerization interface [polypeptide binding]; other site 880070006656 putative tRNAtyr binding site [nucleotide binding]; other site 880070006657 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880070006658 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 880070006659 Walker A/P-loop; other site 880070006660 ATP binding site [chemical binding]; other site 880070006661 Q-loop/lid; other site 880070006662 ABC transporter signature motif; other site 880070006663 Walker B; other site 880070006664 D-loop; other site 880070006665 H-loop/switch region; other site 880070006666 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880070006667 Walker A/P-loop; other site 880070006668 ATP binding site [chemical binding]; other site 880070006669 Q-loop/lid; other site 880070006670 ABC transporter signature motif; other site 880070006671 Walker B; other site 880070006672 D-loop; other site 880070006673 H-loop/switch region; other site 880070006674 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain putative pyrophosphatase YpjD from Bacillus subtilis and its bacterial homologs; Region: NTP-PPase_BsYpjD; cd11531 880070006675 homodimer interface [polypeptide binding]; other site 880070006676 metal binding site [ion binding]; metal-binding site 880070006677 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 880070006678 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 880070006679 MOSC domain; Region: MOSC; pfam03473 880070006680 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 880070006681 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 880070006682 nucleotide binding site [chemical binding]; other site 880070006683 NEF interaction site [polypeptide binding]; other site 880070006684 SBD interface [polypeptide binding]; other site 880070006685 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 880070006686 oligomerisation interface [polypeptide binding]; other site 880070006687 mobile loop; other site 880070006688 roof hairpin; other site 880070006689 PAS domain; Region: PAS_9; pfam13426 880070006690 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 880070006691 putative active site [active] 880070006692 PAS fold; Region: PAS_3; pfam08447 880070006693 heme pocket [chemical binding]; other site 880070006694 PAS fold; Region: PAS_4; pfam08448 880070006695 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 880070006696 putative active site [active] 880070006697 heme pocket [chemical binding]; other site 880070006698 PAS domain S-box; Region: sensory_box; TIGR00229 880070006699 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 880070006700 putative active site [active] 880070006701 heme pocket [chemical binding]; other site 880070006702 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880070006703 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 880070006704 ATP binding site [chemical binding]; other site 880070006705 Mg2+ binding site [ion binding]; other site 880070006706 G-X-G motif; other site 880070006707 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 880070006708 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 880070006709 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 880070006710 dimer interface [polypeptide binding]; other site 880070006711 allosteric magnesium binding site [ion binding]; other site 880070006712 active site 880070006713 aspartate-rich active site metal binding site; other site 880070006714 Schiff base residues; other site 880070006715 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 880070006716 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 880070006717 motif II; other site 880070006718 ornithine aminotransferase; Region: Orn_aminotrans; TIGR01885 880070006719 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 880070006720 inhibitor-cofactor binding pocket; inhibition site 880070006721 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880070006722 catalytic residue [active] 880070006723 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 880070006724 ribosomal protein L33; Region: rpl33; CHL00104 880070006725 Domain of unknown function (DUF4295); Region: DUF4295; pfam14128 880070006726 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 880070006727 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 880070006728 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 880070006729 Sulfatase; Region: Sulfatase; cl17466 880070006730 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070006731 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 880070006732 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 880070006733 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 880070006734 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 880070006735 M28 Zn-Peptidase Aeromonas (Vibrio) proteolytica aminopeptidase (AAP)-like; Region: M28_AAP_like; cd05642 880070006736 Peptidase family M28; Region: Peptidase_M28; pfam04389 880070006737 putative metal binding site [ion binding]; other site 880070006738 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 880070006739 Interdomain contacts; other site 880070006740 Cytokine receptor motif; other site 880070006741 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 880070006742 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 880070006743 YciI-like protein; Reviewed; Region: PRK12866 880070006744 Trehalose utilisation; Region: ThuA; pfam06283 880070006745 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070006746 Sulfatase; Region: Sulfatase; cl17466 880070006747 Sulfatase; Region: Sulfatase; cl17466 880070006748 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070006749 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 880070006750 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 880070006751 putative NAD(P) binding site [chemical binding]; other site 880070006752 dimer interface [polypeptide binding]; other site 880070006753 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 880070006754 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 880070006755 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 880070006756 ribonuclease Z; Region: RNase_Z; TIGR02651 880070006757 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 880070006758 anti sigma factor interaction site; other site 880070006759 regulatory phosphorylation site [posttranslational modification]; other site 880070006760 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 880070006761 ATP binding site [chemical binding]; other site 880070006762 active site 880070006763 substrate binding site [chemical binding]; other site 880070006764 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 880070006765 acetyl-CoA C-acetyltransferase; Region: PLN02644 880070006766 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 880070006767 dimer interface [polypeptide binding]; other site 880070006768 active site 880070006769 von Willebrand factor type A domain; Region: VWA_2; pfam13519 880070006770 metal ion-dependent adhesion site (MIDAS); other site 880070006771 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070006772 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 880070006773 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 880070006774 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 880070006775 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 880070006776 putative NAD(P) binding site [chemical binding]; other site 880070006777 active site 880070006778 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 880070006779 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 880070006780 putative acyl-acceptor binding pocket; other site 880070006781 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 880070006782 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 880070006783 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 880070006784 active site 880070006785 catalytic tetrad [active] 880070006786 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 880070006787 L-fucose transporter; Provisional; Region: PRK10133; cl17665 880070006788 Transposase domain (DUF772); Region: DUF772; pfam05598 880070006789 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 880070006790 Glucuronate isomerase; Region: UxaC; pfam02614 880070006791 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 880070006792 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 880070006793 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 880070006794 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 880070006795 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 880070006796 Ligand Binding Site [chemical binding]; other site 880070006797 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 880070006798 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 880070006799 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 880070006800 nucleotide binding site [chemical binding]; other site 880070006801 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 880070006802 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 880070006803 substrate binding site; other site 880070006804 tetramer interface; other site 880070006805 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 880070006806 active site 880070006807 phosphorylation site [posttranslational modification] 880070006808 intermolecular recognition site; other site 880070006809 exopolyphosphatase; Region: exo_poly_only; TIGR03706 880070006810 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 880070006811 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 880070006812 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 880070006813 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 880070006814 L-aspartate oxidase; Provisional; Region: PRK06175 880070006815 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 880070006816 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 880070006817 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 880070006818 Uncharacterized conserved protein, YhbC family [Function unknown]; Region: COG0782 880070006819 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880070006820 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 880070006821 Protein of unknown function (DUF3500); Region: DUF3500; pfam12006 880070006822 FG-GAP repeat; Region: FG-GAP; pfam01839 880070006823 Family description; Region: VCBS; pfam13517 880070006824 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 880070006825 NADH(P)-binding; Region: NAD_binding_10; pfam13460 880070006826 NAD(P) binding site [chemical binding]; other site 880070006827 putative active site [active] 880070006828 purine nucleoside phosphorylase; Provisional; Region: PRK08202 880070006829 Predicted flavoprotein [General function prediction only]; Region: COG0431 880070006830 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 880070006831 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 880070006832 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 880070006833 nucleotide binding site [chemical binding]; other site 880070006834 SulA interaction site; other site 880070006835 cell division protein FtsA; Region: ftsA; TIGR01174 880070006836 Cell division protein FtsA; Region: FtsA; smart00842 880070006837 Cell division protein FtsA; Region: FtsA; pfam14450 880070006838 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 880070006839 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 880070006840 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 880070006841 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 880070006842 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 880070006843 homodimer interface [polypeptide binding]; other site 880070006844 active site 880070006845 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 880070006846 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 880070006847 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 880070006848 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 880070006849 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 880070006850 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 880070006851 Mg++ binding site [ion binding]; other site 880070006852 putative catalytic motif [active] 880070006853 putative substrate binding site [chemical binding]; other site 880070006854 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 880070006855 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 880070006856 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 880070006857 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 880070006858 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 880070006859 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 880070006860 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 880070006861 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 880070006862 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 880070006863 MraW methylase family; Region: Methyltransf_5; cl17771 880070006864 cell division protein MraZ; Reviewed; Region: PRK00326 880070006865 MraZ protein; Region: MraZ; pfam02381 880070006866 MraZ protein; Region: MraZ; pfam02381 880070006867 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 880070006868 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 880070006869 substrate binding pocket [chemical binding]; other site 880070006870 chain length determination region; other site 880070006871 substrate-Mg2+ binding site; other site 880070006872 catalytic residues [active] 880070006873 aspartate-rich region 1; other site 880070006874 active site lid residues [active] 880070006875 aspartate-rich region 2; other site 880070006876 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 880070006877 putative acyl-acceptor binding pocket; other site 880070006878 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 880070006879 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 880070006880 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 880070006881 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 880070006882 active site 880070006883 metal binding site [ion binding]; metal-binding site 880070006884 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 880070006885 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 880070006886 Peptidase family M48; Region: Peptidase_M48; pfam01435 880070006887 Bacteroidetes-specific putative membrane protein; Region: Bac_Flav_fam_1; TIGR03519 880070006888 C-terminal domain of CHU protein family; Region: CHU_C; cl17875 880070006889 hypothetical protein; Validated; Region: PRK02101 880070006890 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 880070006891 active site 880070006892 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 880070006893 homodimer interface [polypeptide binding]; other site 880070006894 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 880070006895 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 880070006896 HlyD family secretion protein; Region: HlyD_3; pfam13437 880070006897 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 880070006898 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 880070006899 FtsX-like permease family; Region: FtsX; pfam02687 880070006900 Outer membrane efflux protein; Region: OEP; pfam02321 880070006901 Outer membrane efflux protein; Region: OEP; pfam02321 880070006902 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 880070006903 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 880070006904 putative dimer interface [polypeptide binding]; other site 880070006905 putative anticodon binding site; other site 880070006906 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 880070006907 homodimer interface [polypeptide binding]; other site 880070006908 motif 1; other site 880070006909 motif 2; other site 880070006910 active site 880070006911 motif 3; other site 880070006912 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 880070006913 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 880070006914 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 880070006915 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 880070006916 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 880070006917 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 880070006918 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 880070006919 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 880070006920 Methane oxygenase PmoA; Region: PmoA; pfam14100 880070006921 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13181 880070006922 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 880070006923 putative active site [active] 880070006924 oxyanion strand; other site 880070006925 catalytic triad [active] 880070006926 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 880070006927 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 880070006928 catalytic residues [active] 880070006929 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 880070006930 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 880070006931 substrate binding site [chemical binding]; other site 880070006932 glutamase interaction surface [polypeptide binding]; other site 880070006933 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 880070006934 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 880070006935 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 880070006936 metal binding site [ion binding]; metal-binding site 880070006937 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 880070006938 putative active site pocket [active] 880070006939 dimerization interface [polypeptide binding]; other site 880070006940 putative catalytic residue [active] 880070006941 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 880070006942 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 880070006943 Outer membrane efflux protein; Region: OEP; pfam02321 880070006944 Outer membrane efflux protein; Region: OEP; pfam02321 880070006945 Domain of unknown function (DUF305); Region: DUF305; cl17794 880070006946 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 880070006947 HlyD family secretion protein; Region: HlyD_3; pfam13437 880070006948 Protein of unknown function (DUF3347); Region: DUF3347; pfam11827 880070006949 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_1; cd07818 880070006950 putative hydrophobic ligand binding site [chemical binding]; other site 880070006951 2-phosphosulpholactate phosphatase; Region: 2-ph_phosp; pfam04029 880070006952 2-phosphosulfolactate phosphatase; Provisional; Region: PRK14100 880070006953 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 880070006954 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 880070006955 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 880070006956 starch binding outer membrane protein SusD; Region: SusD; cd08977 880070006957 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070006958 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070006959 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070006960 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 880070006961 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 880070006962 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 880070006963 thiamine monophosphate kinase; Provisional; Region: PRK05731 880070006964 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 880070006965 ATP binding site [chemical binding]; other site 880070006966 dimerization interface [polypeptide binding]; other site 880070006967 TRAM domain; Region: TRAM; pfam01938 880070006968 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 880070006969 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 880070006970 S-adenosylmethionine binding site [chemical binding]; other site 880070006971 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880070006972 short chain dehydrogenase; Provisional; Region: PRK06181 880070006973 NAD(P) binding site [chemical binding]; other site 880070006974 active site 880070006975 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 880070006976 Part of AAA domain; Region: AAA_19; pfam13245 880070006977 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 880070006978 AAA domain; Region: AAA_12; pfam13087 880070006979 GldH lipoprotein; Region: GldH_lipo; cl11905 880070006980 PSP1 C-terminal conserved region; Region: PSP1; cl00770 880070006981 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 880070006982 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 880070006983 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 880070006984 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 880070006985 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 880070006986 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 880070006987 ATP binding site [chemical binding]; other site 880070006988 putative Mg++ binding site [ion binding]; other site 880070006989 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 880070006990 nucleotide binding region [chemical binding]; other site 880070006991 ATP-binding site [chemical binding]; other site 880070006992 RQC domain; Region: RQC; pfam09382 880070006993 HRDC domain; Region: HRDC; pfam00570 880070006994 KpsF/GutQ family protein; Region: kpsF; TIGR00393 880070006995 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 880070006996 putative active site [active] 880070006997 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 880070006998 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 880070006999 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 880070007000 Substrate binding site; other site 880070007001 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 880070007002 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 880070007003 putative active site [active] 880070007004 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 880070007005 nucleotide binding site [chemical binding]; other site 880070007006 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 880070007007 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; cl02041 880070007008 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 880070007009 putative active site [active] 880070007010 putative metal binding site [ion binding]; other site 880070007011 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 880070007012 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 880070007013 catalytic loop [active] 880070007014 iron binding site [ion binding]; other site 880070007015 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 880070007016 FAD binding pocket [chemical binding]; other site 880070007017 FAD binding motif [chemical binding]; other site 880070007018 phosphate binding motif [ion binding]; other site 880070007019 beta-alpha-beta structure motif; other site 880070007020 NAD binding pocket [chemical binding]; other site 880070007021 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 880070007022 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 880070007023 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 880070007024 Mechanosensitive ion channel; Region: MS_channel; pfam00924 880070007025 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 880070007026 Carbon starvation protein CstA; Region: CstA; pfam02554 880070007027 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 880070007028 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 880070007029 Peptidase family M54, also called archaemetzincins or archaelysins; Region: Peptidase_M54; cl17349 880070007030 active site 880070007031 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 880070007032 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 880070007033 ATP-grasp domain; Region: ATP-grasp_4; cl17255 880070007034 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 880070007035 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; smart01096 880070007036 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 880070007037 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 880070007038 ATP-grasp domain; Region: ATP-grasp_4; cl17255 880070007039 Domain of unknown function (DUF4202); Region: DUF4202; pfam13875 880070007040 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 880070007041 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; pfam05708 880070007042 hypothetical protein; Provisional; Region: PRK08609 880070007043 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 880070007044 metal binding triad [ion binding]; metal-binding site 880070007045 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 880070007046 active site 880070007047 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 880070007048 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 880070007049 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 880070007050 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 880070007051 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 880070007052 cystathionine beta-synthase; Region: cysta_beta; TIGR01137 880070007053 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 880070007054 dimer interface [polypeptide binding]; other site 880070007055 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880070007056 catalytic residue [active] 880070007057 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the pyridoxal-phosphate (PALP) dependent enzyme domain upstream. The vitamin B6 complex comprises pyridoxine, pyridoxal, and pyridoxamine, as well...; Region: CBS_pair_PALP_assoc2; cd04609 880070007058 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880070007059 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 880070007060 dimer interface [polypeptide binding]; other site 880070007061 phosphorylation site [posttranslational modification] 880070007062 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 880070007063 ATP binding site [chemical binding]; other site 880070007064 Mg2+ binding site [ion binding]; other site 880070007065 G-X-G motif; other site 880070007066 Response regulator receiver domain; Region: Response_reg; pfam00072 880070007067 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 880070007068 active site 880070007069 phosphorylation site [posttranslational modification] 880070007070 intermolecular recognition site; other site 880070007071 dimerization interface [polypeptide binding]; other site 880070007072 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 880070007073 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 880070007074 active site 880070007075 phosphorylation site [posttranslational modification] 880070007076 intermolecular recognition site; other site 880070007077 dimerization interface [polypeptide binding]; other site 880070007078 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 880070007079 Walker A motif; other site 880070007080 ATP binding site [chemical binding]; other site 880070007081 Walker B motif; other site 880070007082 arginine finger; other site 880070007083 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 880070007084 glutamate racemase; Provisional; Region: PRK00865 880070007085 Glutamine amidotransferase domain; Region: GATase_6; pfam13522 880070007086 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 880070007087 active site 880070007088 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 880070007089 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 880070007090 oligomer interface [polypeptide binding]; other site 880070007091 active site 880070007092 metal binding site [ion binding]; metal-binding site 880070007093 Protein of unknown function, DUF479; Region: DUF479; cl01203 880070007094 AAA domain; Region: AAA_11; pfam13086 880070007095 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 880070007096 ATP binding site [chemical binding]; other site 880070007097 AAA domain; Region: AAA_12; pfam13087 880070007098 Protein of unknown function (DUF3007); Region: DUF3007; pfam11460 880070007099 GTP-binding protein LepA; Provisional; Region: PRK05433 880070007100 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 880070007101 G1 box; other site 880070007102 putative GEF interaction site [polypeptide binding]; other site 880070007103 GTP/Mg2+ binding site [chemical binding]; other site 880070007104 Switch I region; other site 880070007105 G2 box; other site 880070007106 G3 box; other site 880070007107 Switch II region; other site 880070007108 G4 box; other site 880070007109 G5 box; other site 880070007110 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 880070007111 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 880070007112 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 880070007113 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14185 880070007114 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 880070007115 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 880070007116 homodimer interface [polypeptide binding]; other site 880070007117 NADP binding site [chemical binding]; other site 880070007118 substrate binding site [chemical binding]; other site 880070007119 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 880070007120 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 880070007121 FeS/SAM binding site; other site 880070007122 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 880070007123 binding surface 880070007124 Tetratricopeptide repeat; Region: TPR_16; pfam13432 880070007125 TPR motif; other site 880070007126 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 880070007127 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 880070007128 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 880070007129 ligand binding site [chemical binding]; other site 880070007130 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070007131 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070007132 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070007133 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 880070007134 starch binding outer membrane protein SusD; Region: SusD; cl17845 880070007135 SusD family; Region: SusD; pfam07980 880070007136 Peptidase S8 family domain in Kp43 proteases; Region: Peptidases_S8_Kp43_protease; cd04842 880070007137 active site 880070007138 catalytic triad [active] 880070007139 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880070007140 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 880070007141 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 880070007142 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 880070007143 active site 880070007144 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 880070007145 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 880070007146 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 880070007147 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 880070007148 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 880070007149 Walker A motif; other site 880070007150 ATP binding site [chemical binding]; other site 880070007151 Walker B motif; other site 880070007152 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 880070007153 Clp protease; Region: CLP_protease; pfam00574 880070007154 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 880070007155 oligomer interface [polypeptide binding]; other site 880070007156 active site residues [active] 880070007157 trigger factor; Region: tig; TIGR00115 880070007158 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 880070007159 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 880070007160 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 880070007161 Zn2+ binding site [ion binding]; other site 880070007162 Mg2+ binding site [ion binding]; other site 880070007163 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 880070007164 synthetase active site [active] 880070007165 NTP binding site [chemical binding]; other site 880070007166 metal binding site [ion binding]; metal-binding site 880070007167 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 880070007168 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 880070007169 ferric uptake regulator; Provisional; Region: fur; PRK09462 880070007170 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 880070007171 metal binding site 2 [ion binding]; metal-binding site 880070007172 putative DNA binding helix; other site 880070007173 metal binding site 1 [ion binding]; metal-binding site 880070007174 dimer interface [polypeptide binding]; other site 880070007175 structural Zn2+ binding site [ion binding]; other site 880070007176 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 880070007177 anti sigma factor interaction site; other site 880070007178 regulatory phosphorylation site [posttranslational modification]; other site 880070007179 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 880070007180 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 880070007181 GDP-binding site [chemical binding]; other site 880070007182 ACT binding site; other site 880070007183 IMP binding site; other site 880070007184 legume lectins; Region: lectin_L-type; cl14058 880070007185 homotetramer interaction site [polypeptide binding]; other site 880070007186 carbohydrate binding site [chemical binding]; other site 880070007187 metal binding site [ion binding]; metal-binding site 880070007188 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 880070007189 C-terminal domain of CHU protein family; Region: CHU_C; cl17875 880070007190 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 880070007191 Protein of unknown function (DUF2752); Region: DUF2752; pfam10825 880070007192 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 880070007193 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 880070007194 DNA-binding site [nucleotide binding]; DNA binding site 880070007195 RNA-binding motif; other site 880070007196 asparagine synthetase AsnA; Provisional; Region: PRK05425 880070007197 motif 1; other site 880070007198 dimer interface [polypeptide binding]; other site 880070007199 active site 880070007200 motif 2; other site 880070007201 motif 3; other site 880070007202 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 880070007203 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 880070007204 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12599 880070007205 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK12651 880070007206 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12663 880070007207 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 880070007208 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK12659 880070007209 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12509 880070007210 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12647 880070007211 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 880070007212 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 880070007213 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 880070007214 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl17418 880070007215 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 880070007216 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 880070007217 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 880070007218 putative catalytic residues [active] 880070007219 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 880070007220 putative active site [active] 880070007221 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 880070007222 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 880070007223 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 880070007224 Protein of unknown function (DUF2805); Region: DUF2805; pfam10985 880070007225 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 880070007226 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; pfam10013 880070007227 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 880070007228 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 880070007229 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 880070007230 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 880070007231 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 880070007232 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 880070007233 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 880070007234 ATP binding site [chemical binding]; other site 880070007235 Mg++ binding site [ion binding]; other site 880070007236 motif III; other site 880070007237 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 880070007238 nucleotide binding region [chemical binding]; other site 880070007239 ATP-binding site [chemical binding]; other site 880070007240 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 880070007241 active site 880070007242 catalytic residues [active] 880070007243 Mechanosensitive ion channel; Region: MS_channel; pfam00924 880070007244 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 880070007245 Protein of unknown function (DUF1593); Region: DUF1593; pfam07632 880070007246 Pectic acid lyase; Region: Pec_lyase; pfam09492 880070007247 Pectate lyase [Carbohydrate transport and metabolism]; Region: PelB; COG3866 880070007248 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 880070007249 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 880070007250 Protein of unknown function (DUF3891); Region: DUF3891; pfam13030 880070007251 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070007252 Sulfatase; Region: Sulfatase; pfam00884 880070007253 Domain of unknown function (DUF3841); Region: DUF3841; pfam12952 880070007254 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 880070007255 active site 880070007256 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070007257 Sulfatase; Region: Sulfatase; pfam00884 880070007258 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 880070007259 starch binding outer membrane protein SusD; Region: SusD; cd08977 880070007260 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070007261 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070007262 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 880070007263 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 880070007264 Protein of unknown function (DUF1565); Region: DUF1565; pfam07602 880070007265 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 880070007266 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 880070007267 FeS/SAM binding site; other site 880070007268 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 880070007269 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 880070007270 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 880070007271 DNA binding residues [nucleotide binding] 880070007272 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 880070007273 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 880070007274 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 880070007275 active site 880070007276 YceG-like family; Region: YceG; pfam02618 880070007277 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 880070007278 dimerization interface [polypeptide binding]; other site 880070007279 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 880070007280 WbqC-like protein family; Region: WbqC; pfam08889 880070007281 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 880070007282 Clp amino terminal domain; Region: Clp_N; pfam02861 880070007283 Clp amino terminal domain; Region: Clp_N; pfam02861 880070007284 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 880070007285 Walker A motif; other site 880070007286 ATP binding site [chemical binding]; other site 880070007287 Walker B motif; other site 880070007288 arginine finger; other site 880070007289 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 880070007290 Walker A motif; other site 880070007291 ATP binding site [chemical binding]; other site 880070007292 Walker B motif; other site 880070007293 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 880070007294 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 880070007295 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 880070007296 inhibitor-cofactor binding pocket; inhibition site 880070007297 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880070007298 catalytic residue [active] 880070007299 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 880070007300 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 880070007301 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 880070007302 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 880070007303 NAD binding site [chemical binding]; other site 880070007304 homodimer interface [polypeptide binding]; other site 880070007305 active site 880070007306 substrate binding site [chemical binding]; other site 880070007307 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 880070007308 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 880070007309 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 880070007310 active site 880070007311 DNA binding site [nucleotide binding] 880070007312 Int/Topo IB signature motif; other site 880070007313 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 880070007314 30S subunit binding site; other site 880070007315 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 880070007316 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 880070007317 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 880070007318 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 880070007319 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 880070007320 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 880070007321 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 880070007322 Ligand binding site; other site 880070007323 Putative Catalytic site; other site 880070007324 DXD motif; other site 880070007325 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 880070007326 elongation factor Ts; Provisional; Region: tsf; PRK09377 880070007327 UBA/TS-N domain; Region: UBA; pfam00627 880070007328 Elongation factor TS; Region: EF_TS; pfam00889 880070007329 Elongation factor TS; Region: EF_TS; pfam00889 880070007330 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 880070007331 rRNA interaction site [nucleotide binding]; other site 880070007332 S8 interaction site; other site 880070007333 putative laminin-1 binding site; other site 880070007334 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 880070007335 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 880070007336 23S rRNA interface [nucleotide binding]; other site 880070007337 L3 interface [polypeptide binding]; other site 880070007338 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 880070007339 Abhydrolase family; Region: Abhydrolase_7; pfam12715 880070007340 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 880070007341 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 880070007342 Amidohydrolase; Region: Amidohydro_2; pfam04909 880070007343 Transposase domain (DUF772); Region: DUF772; pfam05598 880070007344 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 880070007345 Predicted membrane protein [Function unknown]; Region: COG1288 880070007346 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 880070007347 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 880070007348 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 880070007349 active site 880070007350 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 880070007351 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 880070007352 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070007353 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070007354 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070007355 starch binding outer membrane protein SusD; Region: SusD; cd08977 880070007356 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 880070007357 starch binding outer membrane protein SusD; Region: SusD; cd08977 880070007358 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 880070007359 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 880070007360 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 880070007361 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 880070007362 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 880070007363 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 880070007364 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 880070007365 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 880070007366 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 880070007367 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 880070007368 active site 880070007369 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 880070007370 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 880070007371 active site 880070007372 trimer interface [polypeptide binding]; other site 880070007373 allosteric site; other site 880070007374 active site lid [active] 880070007375 hexamer (dimer of trimers) interface [polypeptide binding]; other site 880070007376 Transcriptional regulators [Transcription]; Region: PurR; COG1609 880070007377 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 880070007378 DNA binding site [nucleotide binding] 880070007379 domain linker motif; other site 880070007380 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 880070007381 dimerization interface [polypeptide binding]; other site 880070007382 ligand binding site [chemical binding]; other site 880070007383 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 880070007384 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880070007385 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 880070007386 DNA binding residues [nucleotide binding] 880070007387 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 880070007388 FecR protein; Region: FecR; pfam04773 880070007389 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070007390 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070007391 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070007392 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 880070007393 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 880070007394 starch binding outer membrane protein SusD; Region: SusD; cl17845 880070007395 Predicted acyl esterases [General function prediction only]; Region: COG2936 880070007396 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 880070007397 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 880070007398 homotrimer interaction site [polypeptide binding]; other site 880070007399 putative active site [active] 880070007400 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 880070007401 Sodium Bile acid symporter family; Region: SBF; pfam01758 880070007402 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 880070007403 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 880070007404 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070007405 Sulfatase; Region: Sulfatase; cl17466 880070007406 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 880070007407 pentamer interface [polypeptide binding]; other site 880070007408 dodecaamer interface [polypeptide binding]; other site 880070007409 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070007410 Sulfatase; Region: Sulfatase; pfam00884 880070007411 Putative esterase; Region: Esterase; pfam00756 880070007412 S-formylglutathione hydrolase; Region: PLN02442 880070007413 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 880070007414 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 880070007415 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 880070007416 Walker A motif; other site 880070007417 ATP binding site [chemical binding]; other site 880070007418 Walker B motif; other site 880070007419 arginine finger; other site 880070007420 Putative addiction module component; Region: Unstab_antitox; cl09921 880070007421 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 880070007422 TPR repeat; Region: TPR_11; pfam13414 880070007423 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 880070007424 TPR motif; other site 880070007425 binding surface 880070007426 PAS domain S-box; Region: sensory_box; TIGR00229 880070007427 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 880070007428 putative active site [active] 880070007429 heme pocket [chemical binding]; other site 880070007430 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 880070007431 GAF domain; Region: GAF; cl17456 880070007432 PAS domain S-box; Region: sensory_box; TIGR00229 880070007433 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 880070007434 putative active site [active] 880070007435 heme pocket [chemical binding]; other site 880070007436 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 880070007437 GAF domain; Region: GAF; cl17456 880070007438 PAS domain S-box; Region: sensory_box; TIGR00229 880070007439 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 880070007440 putative active site [active] 880070007441 heme pocket [chemical binding]; other site 880070007442 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 880070007443 PAS fold; Region: PAS_3; pfam08447 880070007444 putative active site [active] 880070007445 heme pocket [chemical binding]; other site 880070007446 PAS fold; Region: PAS_3; pfam08447 880070007447 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 880070007448 phosphorylation site [posttranslational modification] 880070007449 dimer interface [polypeptide binding]; other site 880070007450 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 880070007451 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 880070007452 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 880070007453 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 880070007454 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 880070007455 Transglutaminase-like superfamily; Region: Transglut_core; cl17362 880070007456 Protein of unknown function (DUF2569); Region: DUF2569; pfam10754 880070007457 Lipocalin-like domain; Region: Lipocalin_4; pfam13648 880070007458 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070007459 Sulfatase; Region: Sulfatase; pfam00884 880070007460 Na(+)/iodide (NIS) and Na(+)/multivitamin (SMVT) cotransporters, and related proteins; solute binding domain; Region: SLC5sbd_NIS-like; cd10326 880070007461 Na binding site [ion binding]; other site 880070007462 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 880070007463 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 880070007464 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 880070007465 Beta-lactamase; Region: Beta-lactamase; cl17358 880070007466 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 880070007467 Response regulator receiver domain; Region: Response_reg; pfam00072 880070007468 active site 880070007469 phosphorylation site [posttranslational modification] 880070007470 intermolecular recognition site; other site 880070007471 dimerization interface [polypeptide binding]; other site 880070007472 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 880070007473 Domain of unknown function DUF77; Region: DUF77; pfam01910 880070007474 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 880070007475 putative active site [active] 880070007476 catalytic residue [active] 880070007477 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 880070007478 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 880070007479 5S rRNA interface [nucleotide binding]; other site 880070007480 CTC domain interface [polypeptide binding]; other site 880070007481 L16 interface [polypeptide binding]; other site 880070007482 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 880070007483 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 880070007484 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 880070007485 active site 880070007486 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 880070007487 GAF domain; Region: GAF; pfam01590 880070007488 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 880070007489 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 880070007490 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 880070007491 putative active site [active] 880070007492 heme pocket [chemical binding]; other site 880070007493 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 880070007494 PAS fold; Region: PAS_3; pfam08447 880070007495 putative active site [active] 880070007496 heme pocket [chemical binding]; other site 880070007497 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 880070007498 dimer interface [polypeptide binding]; other site 880070007499 phosphorylation site [posttranslational modification] 880070007500 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 880070007501 ATP binding site [chemical binding]; other site 880070007502 Mg2+ binding site [ion binding]; other site 880070007503 G-X-G motif; other site 880070007504 Response regulator receiver domain; Region: Response_reg; pfam00072 880070007505 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 880070007506 active site 880070007507 phosphorylation site [posttranslational modification] 880070007508 intermolecular recognition site; other site 880070007509 dimerization interface [polypeptide binding]; other site 880070007510 Response regulator receiver domain; Region: Response_reg; pfam00072 880070007511 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 880070007512 active site 880070007513 phosphorylation site [posttranslational modification] 880070007514 intermolecular recognition site; other site 880070007515 dimerization interface [polypeptide binding]; other site 880070007516 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 880070007517 putative catalytic site [active] 880070007518 putative metal binding site [ion binding]; other site 880070007519 putative phosphate binding site [ion binding]; other site 880070007520 Glyco_18 domain; Region: Glyco_18; smart00636 880070007521 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 880070007522 active site 880070007523 Predicted amidohydrolase [General function prediction only]; Region: COG0388 880070007524 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_7; cd07585 880070007525 putative active site [active] 880070007526 catalytic triad [active] 880070007527 putative dimer interface [polypeptide binding]; other site 880070007528 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 880070007529 nudix motif; other site 880070007530 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 880070007531 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 880070007532 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 880070007533 catalytic residue [active] 880070007534 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880070007535 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 880070007536 binding surface 880070007537 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880070007538 TPR motif; other site 880070007539 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880070007540 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 880070007541 dimer interface [polypeptide binding]; other site 880070007542 phosphorylation site [posttranslational modification] 880070007543 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 880070007544 ATP binding site [chemical binding]; other site 880070007545 G-X-G motif; other site 880070007546 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 880070007547 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 880070007548 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 880070007549 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 880070007550 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 880070007551 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 880070007552 putative active site [active] 880070007553 heme pocket [chemical binding]; other site 880070007554 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880070007555 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 880070007556 dimer interface [polypeptide binding]; other site 880070007557 phosphorylation site [posttranslational modification] 880070007558 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 880070007559 ATP binding site [chemical binding]; other site 880070007560 Mg2+ binding site [ion binding]; other site 880070007561 G-X-G motif; other site 880070007562 Response regulator receiver domain; Region: Response_reg; pfam00072 880070007563 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 880070007564 active site 880070007565 phosphorylation site [posttranslational modification] 880070007566 intermolecular recognition site; other site 880070007567 dimerization interface [polypeptide binding]; other site 880070007568 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 880070007569 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 880070007570 E3 interaction surface; other site 880070007571 lipoyl attachment site [posttranslational modification]; other site 880070007572 e3 binding domain; Region: E3_binding; pfam02817 880070007573 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 880070007574 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 880070007575 competence damage-inducible protein A; Provisional; Region: PRK00549 880070007576 putative MPT binding site; other site 880070007577 Competence-damaged protein; Region: CinA; pfam02464 880070007578 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 880070007579 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 880070007580 folate binding site [chemical binding]; other site 880070007581 NADP+ binding site [chemical binding]; other site 880070007582 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 880070007583 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 880070007584 Ligand Binding Site [chemical binding]; other site 880070007585 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 880070007586 Ligand Binding Site [chemical binding]; other site 880070007587 phosphoserine phosphatase SerB; Region: serB; TIGR00338 880070007588 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 880070007589 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 880070007590 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 880070007591 ligand binding site [chemical binding]; other site 880070007592 NAD binding site [chemical binding]; other site 880070007593 tetramer interface [polypeptide binding]; other site 880070007594 catalytic site [active] 880070007595 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 880070007596 L-serine binding site [chemical binding]; other site 880070007597 ACT domain interface; other site 880070007598 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 880070007599 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 880070007600 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 880070007601 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880070007602 Walker A/P-loop; other site 880070007603 ATP binding site [chemical binding]; other site 880070007604 Q-loop/lid; other site 880070007605 ABC transporter signature motif; other site 880070007606 Walker B; other site 880070007607 D-loop; other site 880070007608 H-loop/switch region; other site 880070007609 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 880070007610 ABC exporter membrane fusion protein, DevB family; Region: heterocyst_DevB; TIGR02971 880070007611 HlyD family secretion protein; Region: HlyD_3; pfam13437 880070007612 Outer membrane efflux protein; Region: OEP; pfam02321 880070007613 Outer membrane efflux protein; Region: OEP; pfam02321 880070007614 Uncharacterized conserved protein [Function unknown]; Region: COG4850 880070007615 Uncharacterized conserved protein (DUF2183); Region: DUF2183; pfam09949 880070007616 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 880070007617 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 880070007618 active site 880070007619 phosphorylation site [posttranslational modification] 880070007620 intermolecular recognition site; other site 880070007621 dimerization interface [polypeptide binding]; other site 880070007622 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 880070007623 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 880070007624 ring oligomerisation interface [polypeptide binding]; other site 880070007625 ATP/Mg binding site [chemical binding]; other site 880070007626 stacking interactions; other site 880070007627 hinge regions; other site 880070007628 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 880070007629 oligomerisation interface [polypeptide binding]; other site 880070007630 mobile loop; other site 880070007631 roof hairpin; other site 880070007632 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 880070007633 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 880070007634 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 880070007635 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 880070007636 Walker B motif; other site 880070007637 arginine finger; other site 880070007638 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 880070007639 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14329 880070007640 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 880070007641 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 880070007642 FeS/SAM binding site; other site 880070007643 TRAM domain; Region: TRAM; pfam01938 880070007644 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 880070007645 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 880070007646 tetramer interface [polypeptide binding]; other site 880070007647 heme binding pocket [chemical binding]; other site 880070007648 NADPH binding site [chemical binding]; other site 880070007649 Family of unknown function (DUF490); Region: DUF490; pfam04357 880070007650 Surface antigen; Region: Bac_surface_Ag; pfam01103 880070007651 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 880070007652 active site 880070007653 DNA polymerase IV; Validated; Region: PRK02406 880070007654 DNA binding site [nucleotide binding] 880070007655 glutamate dehydrogenase; Provisional; Region: PRK09414 880070007656 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 880070007657 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 880070007658 NAD(P) binding pocket [chemical binding]; other site 880070007659 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 880070007660 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 880070007661 YceI-like domain; Region: YceI; pfam04264 880070007662 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 880070007663 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 880070007664 trimer interface [polypeptide binding]; other site 880070007665 putative metal binding site [ion binding]; other site 880070007666 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 880070007667 Isocitrate dehydrogenase kinase/phosphatase (AceK); Region: AceK; pfam06315 880070007668 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 880070007669 putative active site [active] 880070007670 putative CoA binding site [chemical binding]; other site 880070007671 nudix motif; other site 880070007672 metal binding site [ion binding]; metal-binding site 880070007673 Protein of unknown function (DUF819); Region: DUF819; cl02317 880070007674 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 880070007675 dimer interface [polypeptide binding]; other site 880070007676 [2Fe-2S] cluster binding site [ion binding]; other site 880070007677 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 880070007678 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 880070007679 putative active site [active] 880070007680 heme pocket [chemical binding]; other site 880070007681 PAS domain; Region: PAS_9; pfam13426 880070007682 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 880070007683 PAS fold; Region: PAS_3; pfam08447 880070007684 putative active site [active] 880070007685 heme pocket [chemical binding]; other site 880070007686 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 880070007687 PAS fold; Region: PAS_3; pfam08447 880070007688 putative active site [active] 880070007689 heme pocket [chemical binding]; other site 880070007690 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880070007691 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 880070007692 dimer interface [polypeptide binding]; other site 880070007693 phosphorylation site [posttranslational modification] 880070007694 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 880070007695 ATP binding site [chemical binding]; other site 880070007696 Mg2+ binding site [ion binding]; other site 880070007697 G-X-G motif; other site 880070007698 Response regulator receiver domain; Region: Response_reg; pfam00072 880070007699 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 880070007700 active site 880070007701 phosphorylation site [posttranslational modification] 880070007702 intermolecular recognition site; other site 880070007703 dimerization interface [polypeptide binding]; other site 880070007704 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 880070007705 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 880070007706 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 880070007707 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 880070007708 substrate binding pocket [chemical binding]; other site 880070007709 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 880070007710 B12 binding site [chemical binding]; other site 880070007711 cobalt ligand [ion binding]; other site 880070007712 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 880070007713 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 880070007714 FAD binding site [chemical binding]; other site 880070007715 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cl12004 880070007716 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 880070007717 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 880070007718 active site 880070007719 NTP binding site [chemical binding]; other site 880070007720 metal binding triad [ion binding]; metal-binding site 880070007721 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 880070007722 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 880070007723 Zn2+ binding site [ion binding]; other site 880070007724 Mg2+ binding site [ion binding]; other site 880070007725 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 880070007726 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 880070007727 dihydroorotase; Validated; Region: pyrC; PRK09357 880070007728 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 880070007729 active site 880070007730 Protein of unknown function (DUF4199); Region: DUF4199; pfam13858 880070007731 Protein of unknown function (DUF4199); Region: DUF4199; pfam13858 880070007732 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 880070007733 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 880070007734 Ligand binding site; other site 880070007735 Putative Catalytic site; other site 880070007736 DXD motif; other site 880070007737 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 880070007738 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 880070007739 active site 880070007740 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 880070007741 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional; Region: PRK09841 880070007742 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 880070007743 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 880070007744 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 880070007745 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 880070007746 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 880070007747 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 880070007748 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 880070007749 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 880070007750 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 880070007751 inhibitor-cofactor binding pocket; inhibition site 880070007752 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880070007753 catalytic residue [active] 880070007754 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 880070007755 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 880070007756 active site 880070007757 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 880070007758 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 880070007759 NAD binding site [chemical binding]; other site 880070007760 substrate binding site [chemical binding]; other site 880070007761 homodimer interface [polypeptide binding]; other site 880070007762 active site 880070007763 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 880070007764 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 880070007765 putative NAD(P) binding site [chemical binding]; other site 880070007766 active site 880070007767 putative substrate binding site [chemical binding]; other site 880070007768 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 880070007769 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; cd02062 880070007770 FMN binding site [chemical binding]; other site 880070007771 dimer interface [polypeptide binding]; other site 880070007772 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 880070007773 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 880070007774 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 880070007775 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 880070007776 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 880070007777 active site 880070007778 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 880070007779 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 880070007780 O-Antigen ligase; Region: Wzy_C; pfam04932 880070007781 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 880070007782 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 880070007783 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 880070007784 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 880070007785 trimer interface [polypeptide binding]; other site 880070007786 active site 880070007787 substrate binding site [chemical binding]; other site 880070007788 CoA binding site [chemical binding]; other site 880070007789 Nitroreductase family; Region: Nitroreductase; pfam00881 880070007790 FMN binding site [chemical binding]; other site 880070007791 dimer interface [polypeptide binding]; other site 880070007792 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 880070007793 putative acyl transferase; Provisional; Region: PRK10502 880070007794 wcaF-like: This group is composed of the protein product of the E. coli wcaF gene and similar proteins. WcaF is part of the gene cluster responsible for the biosynthesis of the extracellular polysaccharide colanic acid. The wcaF protein is predicted to...; Region: LbH_wcaF_like; cd05825 880070007795 putative trimer interface [polypeptide binding]; other site 880070007796 putative active site [active] 880070007797 putative substrate binding site [chemical binding]; other site 880070007798 putative CoA binding site [chemical binding]; other site 880070007799 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 880070007800 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 880070007801 putative metal binding site; other site 880070007802 Uncharacterized conserved protein [Function unknown]; Region: COG1434 880070007803 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 880070007804 putative active site [active] 880070007805 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 880070007806 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 880070007807 metal-binding site 880070007808 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880070007809 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 880070007810 NAD(P) binding site [chemical binding]; other site 880070007811 active site 880070007812 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 880070007813 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine precursor; Region: GT_WbpL_WbcO_like; cd06854 880070007814 Mg++ binding site [ion binding]; other site 880070007815 putative catalytic motif [active] 880070007816 putative substrate binding site [chemical binding]; other site 880070007817 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 880070007818 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 880070007819 inhibitor-cofactor binding pocket; inhibition site 880070007820 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880070007821 catalytic residue [active] 880070007822 Bacterial sugar transferase; Region: Bac_transf; pfam02397 880070007823 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 880070007824 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 880070007825 putative trimer interface [polypeptide binding]; other site 880070007826 putative CoA binding site [chemical binding]; other site 880070007827 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 880070007828 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 880070007829 NAD(P) binding site [chemical binding]; other site 880070007830 homodimer interface [polypeptide binding]; other site 880070007831 substrate binding site [chemical binding]; other site 880070007832 active site 880070007833 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 880070007834 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 880070007835 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 880070007836 NAD(P) binding site [chemical binding]; other site 880070007837 homodimer interface [polypeptide binding]; other site 880070007838 substrate binding site [chemical binding]; other site 880070007839 active site 880070007840 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 880070007841 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 880070007842 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 880070007843 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 880070007844 Glutamine amidotransferase class-I; Region: GATase; pfam00117 880070007845 glutamine binding [chemical binding]; other site 880070007846 catalytic triad [active] 880070007847 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 880070007848 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 880070007849 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 880070007850 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 880070007851 active site 880070007852 ribulose/triose binding site [chemical binding]; other site 880070007853 phosphate binding site [ion binding]; other site 880070007854 substrate (anthranilate) binding pocket [chemical binding]; other site 880070007855 product (indole) binding pocket [chemical binding]; other site 880070007856 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 880070007857 active site 880070007858 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 880070007859 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 880070007860 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880070007861 catalytic residue [active] 880070007862 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 880070007863 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 880070007864 substrate binding site [chemical binding]; other site 880070007865 active site 880070007866 catalytic residues [active] 880070007867 heterodimer interface [polypeptide binding]; other site 880070007868 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 880070007869 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 880070007870 Predicted membrane protein [Function unknown]; Region: COG4270 880070007871 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 880070007872 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 880070007873 ligand binding site [chemical binding]; other site 880070007874 Biopterin-dependent aromatic amino acid hydroxylase; a family of non-heme, iron(II)-dependent enzymes that includes prokaryotic and eukaryotic phenylalanine-4-hydroxylase (PheOH), eukaryotic tyrosine hydroxylase (TyrOH) and eukaryotic tryptophan...; Region: arom_aa_hydroxylase; cd00361 880070007875 cofactor binding site; other site 880070007876 metal binding site [ion binding]; metal-binding site 880070007877 Domain of unknown function (DUF303); Region: DUF303; pfam03629 880070007878 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 880070007879 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 880070007880 active site 880070007881 metal binding site [ion binding]; metal-binding site 880070007882 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 880070007883 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 880070007884 ATP binding site [chemical binding]; other site 880070007885 Mg2+ binding site [ion binding]; other site 880070007886 G-X-G motif; other site 880070007887 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of type II DNA topoisomerases (Topo II) and DNA mismatch repair (MutL/MLH1/PMS2) proteins. This transducer domain is homologous to the second...; Region: TopoII_MutL_Trans; cl02783 880070007888 ATP binding site [chemical binding]; other site 880070007889 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 880070007890 active site 880070007891 putative metal-binding site [ion binding]; other site 880070007892 DNA topoisomerase IV subunit A; Provisional; Region: PRK12758 880070007893 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 880070007894 CAP-like domain; other site 880070007895 active site 880070007896 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 880070007897 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 880070007898 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 880070007899 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 880070007900 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 880070007901 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 880070007902 active site 880070007903 dimer interface [polypeptide binding]; other site 880070007904 motif 1; other site 880070007905 motif 2; other site 880070007906 motif 3; other site 880070007907 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 880070007908 anticodon binding site; other site 880070007909 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 880070007910 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 880070007911 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 880070007912 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 880070007913 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 880070007914 23S rRNA binding site [nucleotide binding]; other site 880070007915 L21 binding site [polypeptide binding]; other site 880070007916 L13 binding site [polypeptide binding]; other site 880070007917 Predicted permeases [General function prediction only]; Region: COG0795 880070007918 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 880070007919 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 880070007920 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 880070007921 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 880070007922 16S/18S rRNA binding site [nucleotide binding]; other site 880070007923 S13e-L30e interaction site [polypeptide binding]; other site 880070007924 25S rRNA binding site [nucleotide binding]; other site 880070007925 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 880070007926 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 880070007927 RNase E interface [polypeptide binding]; other site 880070007928 trimer interface [polypeptide binding]; other site 880070007929 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 880070007930 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 880070007931 RNase E interface [polypeptide binding]; other site 880070007932 trimer interface [polypeptide binding]; other site 880070007933 active site 880070007934 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 880070007935 putative nucleic acid binding region [nucleotide binding]; other site 880070007936 G-X-X-G motif; other site 880070007937 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 880070007938 RNA binding site [nucleotide binding]; other site 880070007939 domain interface; other site 880070007940 RNA polymerase sigma factor, cyanobacterial RpoD-like family; Region: Sig70-cyanoRpoD; TIGR02997 880070007941 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 880070007942 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880070007943 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 880070007944 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 880070007945 DNA binding residues [nucleotide binding] 880070007946 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 880070007947 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 880070007948 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 880070007949 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 880070007950 Peptidase family M23; Region: Peptidase_M23; pfam01551 880070007951 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 880070007952 bacillithiol biosynthesis deacetylase BshB1; Region: thiol_BshB1; TIGR04001 880070007953 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 880070007954 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 880070007955 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 880070007956 Uncharacterized ACR, COG1678; Region: DUF179; pfam02622 880070007957 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 880070007958 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 880070007959 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 880070007960 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 880070007961 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 880070007962 D5 N terminal like; Region: D5_N; pfam08706 880070007963 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 880070007964 Helix-turn-helix domain; Region: HTH_17; pfam12728 880070007965 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 880070007966 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 880070007967 active site 880070007968 DNA binding site [nucleotide binding] 880070007969 Int/Topo IB signature motif; other site 880070007970 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 880070007971 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880070007972 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 880070007973 dimer interface [polypeptide binding]; other site 880070007974 phosphorylation site [posttranslational modification] 880070007975 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 880070007976 ATP binding site [chemical binding]; other site 880070007977 Mg2+ binding site [ion binding]; other site 880070007978 G-X-G motif; other site 880070007979 Response regulator receiver domain; Region: Response_reg; pfam00072 880070007980 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 880070007981 active site 880070007982 phosphorylation site [posttranslational modification] 880070007983 intermolecular recognition site; other site 880070007984 dimerization interface [polypeptide binding]; other site 880070007985 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 880070007986 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 880070007987 Phage Tail Collar Domain; Region: Collar; pfam07484 880070007988 PEGA domain; Region: PEGA; pfam08308 880070007989 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 880070007990 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 880070007991 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880070007992 Putative glycoside hydrolase xylanase; Region: Xylanase; pfam13201 880070007993 Amidohydrolase; Region: Amidohydro_5; pfam13594 880070007994 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 880070007995 Amidohydrolase; Region: Amidohydro_4; pfam13147 880070007996 active site 880070007997 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 880070007998 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 880070007999 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 880070008000 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 880070008001 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 880070008002 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 880070008003 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 880070008004 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 880070008005 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 880070008006 HlyD family secretion protein; Region: HlyD_3; pfam13437 880070008007 putative transporter; Provisional; Region: PRK10484 880070008008 uncharacterized SLC5 subfamily, Escherichia coli YidK-like; solute binding domain; Region: SLC5sbd_YidK; cd10328 880070008009 Na binding site [ion binding]; other site 880070008010 Family of unknown function (DUF706); Region: DUF706; pfam05153 880070008011 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylic-acid synthase; Region: menD; TIGR00173 880070008012 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 880070008013 dimer interface [polypeptide binding]; other site 880070008014 tetramer interface [polypeptide binding]; other site 880070008015 PYR/PP interface [polypeptide binding]; other site 880070008016 TPP binding site [chemical binding]; other site 880070008017 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 880070008018 TPP-binding site; other site 880070008019 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 880070008020 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 880070008021 CoenzymeA binding site [chemical binding]; other site 880070008022 subunit interaction site [polypeptide binding]; other site 880070008023 PHB binding site; other site 880070008024 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 880070008025 catalytic core [active] 880070008026 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 880070008027 Putative zinc ribbon domain; Region: DUF164; pfam02591 880070008028 Uncharacterized conserved protein [Function unknown]; Region: COG0327 880070008029 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 880070008030 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 880070008031 Uncharacterized conserved protein [Function unknown]; Region: COG0327 880070008032 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 880070008033 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 880070008034 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 880070008035 Domain of unknown function (DUF4289); Region: DUF4289; pfam14121 880070008036 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 880070008037 active site 880070008038 dinuclear metal binding site [ion binding]; other site 880070008039 dimerization interface [polypeptide binding]; other site 880070008040 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 880070008041 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 880070008042 FtsX-like permease family; Region: FtsX; pfam02687 880070008043 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 880070008044 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 880070008045 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 880070008046 Sulfatase; Region: Sulfatase; cl17466 880070008047 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070008048 Predicted integral membrane protein [Function unknown]; Region: COG5616 880070008049 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 880070008050 TPR motif; other site 880070008051 binding surface 880070008052 TPR repeat; Region: TPR_11; pfam13414 880070008053 Helix-turn-helix domain; Region: HTH_18; pfam12833 880070008054 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 880070008055 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 880070008056 trimer interface [polypeptide binding]; other site 880070008057 active site 880070008058 substrate binding site [chemical binding]; other site 880070008059 CoA binding site [chemical binding]; other site 880070008060 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070008061 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 880070008062 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 880070008063 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 880070008064 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 880070008065 active site 880070008066 phosphorylation site [posttranslational modification] 880070008067 intermolecular recognition site; other site 880070008068 dimerization interface [polypeptide binding]; other site 880070008069 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880070008070 AAA ATPase domain; Region: AAA_16; pfam13191 880070008071 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 880070008072 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; cl15777 880070008073 putative active site pocket [active] 880070008074 dimerization interface [polypeptide binding]; other site 880070008075 putative catalytic residue [active] 880070008076 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880070008077 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 880070008078 TPR motif; other site 880070008079 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880070008080 binding surface 880070008081 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880070008082 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880070008083 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 880070008084 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 880070008085 Mg2+ binding site [ion binding]; other site 880070008086 G-X-G motif; other site 880070008087 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 880070008088 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 880070008089 substrate binding site [chemical binding]; other site 880070008090 dimer interface [polypeptide binding]; other site 880070008091 ATP binding site [chemical binding]; other site 880070008092 Inosine-uridine preferring nucleoside hydrolase; Region: IU_nuc_hydro; pfam01156 880070008093 active site 880070008094 Ureide permease; Region: Ureide_permease; pfam07168 880070008095 L-rhamnose-proton symport protein (RhaT); Region: RhaT; cl05728 880070008096 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 880070008097 dimerization interface [polypeptide binding]; other site 880070008098 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 880070008099 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 880070008100 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 880070008101 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 880070008102 active site residue [active] 880070008103 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 880070008104 active site residue [active] 880070008105 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 880070008106 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 880070008107 NAD(P) binding site [chemical binding]; other site 880070008108 homotetramer interface [polypeptide binding]; other site 880070008109 homodimer interface [polypeptide binding]; other site 880070008110 active site 880070008111 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 880070008112 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 880070008113 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 880070008114 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 880070008115 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 880070008116 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880070008117 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 880070008118 DNA binding residues [nucleotide binding] 880070008119 Anti-sigma-K factor rskA; Region: RskA; pfam10099 880070008120 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 880070008121 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 880070008122 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 880070008123 tetramer interface [polypeptide binding]; other site 880070008124 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880070008125 catalytic residue [active] 880070008126 recombination factor protein RarA; Reviewed; Region: PRK13342 880070008127 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 880070008128 Walker A motif; other site 880070008129 ATP binding site [chemical binding]; other site 880070008130 Walker B motif; other site 880070008131 arginine finger; other site 880070008132 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 880070008133 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 880070008134 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 880070008135 catalytic residues [active] 880070008136 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 880070008137 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 880070008138 HlyD family secretion protein; Region: HlyD_3; pfam13437 880070008139 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 880070008140 Outer membrane efflux protein; Region: OEP; pfam02321 880070008141 Outer membrane efflux protein; Region: OEP; pfam02321 880070008142 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880070008143 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 880070008144 dimerization interface [polypeptide binding]; other site 880070008145 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 880070008146 dimer interface [polypeptide binding]; other site 880070008147 phosphorylation site [posttranslational modification] 880070008148 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 880070008149 ATP binding site [chemical binding]; other site 880070008150 Mg2+ binding site [ion binding]; other site 880070008151 G-X-G motif; other site 880070008152 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 880070008153 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 880070008154 active site 880070008155 phosphorylation site [posttranslational modification] 880070008156 intermolecular recognition site; other site 880070008157 dimerization interface [polypeptide binding]; other site 880070008158 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 880070008159 DNA binding site [nucleotide binding] 880070008160 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 880070008161 S-adenosylmethionine binding site [chemical binding]; other site 880070008162 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 880070008163 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 880070008164 putative catalytic cysteine [active] 880070008165 gamma-glutamyl kinase; Provisional; Region: PRK05429 880070008166 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 880070008167 nucleotide binding site [chemical binding]; other site 880070008168 homotetrameric interface [polypeptide binding]; other site 880070008169 putative phosphate binding site [ion binding]; other site 880070008170 putative allosteric binding site; other site 880070008171 PUA domain; Region: PUA; pfam01472 880070008172 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 880070008173 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 880070008174 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 880070008175 Domain of unknown function (DUF4114); Region: DUF4114; pfam13448 880070008176 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 880070008177 dimer interface [polypeptide binding]; other site 880070008178 phosphorylation site [posttranslational modification] 880070008179 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 880070008180 ATP binding site [chemical binding]; other site 880070008181 Mg2+ binding site [ion binding]; other site 880070008182 G-X-G motif; other site 880070008183 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 880070008184 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 880070008185 active site 880070008186 phosphorylation site [posttranslational modification] 880070008187 intermolecular recognition site; other site 880070008188 dimerization interface [polypeptide binding]; other site 880070008189 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 880070008190 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 880070008191 catalytic loop [active] 880070008192 iron binding site [ion binding]; other site 880070008193 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 880070008194 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 880070008195 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 880070008196 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 880070008197 MarR family; Region: MarR_2; pfam12802 880070008198 short chain dehydrogenase; Provisional; Region: PRK08339 880070008199 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 880070008200 putative NAD(P) binding site [chemical binding]; other site 880070008201 putative active site [active] 880070008202 Cytochrome c; Region: Cytochrom_C; pfam00034 880070008203 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 880070008204 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 880070008205 Walker A/P-loop; other site 880070008206 ATP binding site [chemical binding]; other site 880070008207 Q-loop/lid; other site 880070008208 ABC transporter signature motif; other site 880070008209 Walker B; other site 880070008210 D-loop; other site 880070008211 H-loop/switch region; other site 880070008212 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 880070008213 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 880070008214 ABC-ATPase subunit interface; other site 880070008215 dimer interface [polypeptide binding]; other site 880070008216 putative PBP binding regions; other site 880070008217 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 880070008218 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 880070008219 intersubunit interface [polypeptide binding]; other site 880070008220 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 880070008221 TonB-dependent vitamin B12 receptor; Region: TonB-B12; TIGR01779 880070008222 Uncharacterized conserved protein [Function unknown]; Region: COG5276 880070008223 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; cl17552 880070008224 Holliday junction resolvase; Reviewed; Region: ruvC; PRK00039 880070008225 active site 880070008226 putative DNA-binding cleft [nucleotide binding]; other site 880070008227 dimer interface [polypeptide binding]; other site 880070008228 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 880070008229 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 880070008230 active site 880070008231 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 880070008232 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880070008233 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 880070008234 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 880070008235 NodB motif; other site 880070008236 active site 880070008237 catalytic site [active] 880070008238 metal binding site [ion binding]; metal-binding site 880070008239 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 880070008240 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 880070008241 active site 880070008242 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 880070008243 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 880070008244 active site 880070008245 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 880070008246 active site 880070008247 homodimer interface [polypeptide binding]; other site 880070008248 Helix-turn-helix domain; Region: HTH_17; pfam12728 880070008249 Virulence-associated protein E; Region: VirE; pfam05272 880070008250 CHC2 zinc finger; Region: zf-CHC2; cl17510 880070008251 Toprim-like; Region: Toprim_2; pfam13155 880070008252 active site 880070008253 metal binding site [ion binding]; metal-binding site 880070008254 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 880070008255 Coenzyme A binding pocket [chemical binding]; other site 880070008256 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 880070008257 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 880070008258 DNA binding residues [nucleotide binding] 880070008259 dimerization interface [polypeptide binding]; other site 880070008260 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 880070008261 Leucine-rich repeats; other site 880070008262 Substrate binding site [chemical binding]; other site 880070008263 Leucine rich repeat; Region: LRR_8; pfam13855 880070008264 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 880070008265 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 880070008266 Interdomain contacts; other site 880070008267 Cytokine receptor motif; other site 880070008268 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 880070008269 Leucine rich repeat; Region: LRR_8; pfam13855 880070008270 Leucine-rich repeats; other site 880070008271 Substrate binding site [chemical binding]; other site 880070008272 Leucine rich repeat; Region: LRR_8; pfam13855 880070008273 Leucine rich repeat; Region: LRR_8; pfam13855 880070008274 Leucine rich repeat; Region: LRR_8; pfam13855 880070008275 Leucine rich repeat; Region: LRR_8; pfam13855 880070008276 Leucine rich repeat; Region: LRR_8; pfam13855 880070008277 Immunoglobulin domain; Region: Ig; cl11960 880070008278 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 880070008279 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 880070008280 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 880070008281 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 880070008282 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 880070008283 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 880070008284 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 880070008285 P-loop; other site 880070008286 Magnesium ion binding site [ion binding]; other site 880070008287 Domain of unknown function (DUF4134); Region: DUF4134; pfam13572 880070008288 Domain of unknown function (DUF4134); Region: DUF4134; pfam13572 880070008289 Bacteroides conjugation system ATPase, TraG family; Region: Bac_Flav_CT_G; TIGR03783 880070008290 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 880070008291 Domain of unknown function DUF87; Region: DUF87; pfam01935 880070008292 Bacteroides conjugative transposon TraJ protein; Region: Bac_Flav_CT_J; TIGR03782 880070008293 Bacteroides conjugative transposon TraK protein; Region: Bac_Flav_CT_K; TIGR03781 880070008294 Protein of unknown function (DUF3714); Region: DUF3714; pfam12508 880070008295 Bacteroides conjugative transposon TraN protein; Region: Bac_Flav_CT_N; TIGR03780 880070008296 Domain of unknown function (DUF4138); Region: DUF4138; pfam13595 880070008297 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 880070008298 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 880070008299 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 880070008300 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 880070008301 Protein of unknown function (DUF4099); Region: DUF4099; pfam13351 880070008302 Protein of unknown function (DUF3945); Region: DUF3945; pfam13101 880070008303 hypothetical protein; Reviewed; Region: PRK00024 880070008304 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 880070008305 MPN+ (JAMM) motif; other site 880070008306 Zinc-binding site [ion binding]; other site 880070008307 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 880070008308 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 880070008309 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 880070008310 AAA ATPase domain; Region: AAA_16; pfam13191 880070008311 TATA element modulatory factor 1 TATA binding; Region: TMF_TATA_bd; pfam12325 880070008312 Zinc-finger of mitochondrial splicing suppressor 51; Region: zf-Mss51; pfam13824 880070008313 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 880070008314 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 880070008315 sequence-specific DNA binding site [nucleotide binding]; other site 880070008316 salt bridge; other site 880070008317 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 880070008318 HsdM N-terminal domain; Region: HsdM_N; pfam12161 880070008319 Methyltransferase domain; Region: Methyltransf_26; pfam13659 880070008320 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 880070008321 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 880070008322 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 880070008323 Abi-like protein; Region: Abi_2; pfam07751 880070008324 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 880070008325 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 880070008326 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 880070008327 ATP binding site [chemical binding]; other site 880070008328 putative Mg++ binding site [ion binding]; other site 880070008329 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 880070008330 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 880070008331 Protein of unknown function (DUF4238); Region: DUF4238; pfam14022 880070008332 Transposase; Region: DEDD_Tnp_IS110; pfam01548 880070008333 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 880070008334 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 880070008335 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 880070008336 active site 880070008337 NTP binding site [chemical binding]; other site 880070008338 metal binding triad [ion binding]; metal-binding site 880070008339 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 880070008340 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 880070008341 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 880070008342 non-specific DNA binding site [nucleotide binding]; other site 880070008343 salt bridge; other site 880070008344 sequence-specific DNA binding site [nucleotide binding]; other site 880070008345 Domain of unknown function (DUF955); Region: DUF955; cl01076 880070008346 Large family of predicted nucleotide-binding domains; Region: PINc; smart00670 880070008347 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 880070008348 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 880070008349 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 880070008350 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 880070008351 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 880070008352 GLPGLI family protein; Region: GLPGLI; TIGR01200 880070008353 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 880070008354 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 880070008355 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 880070008356 active site 880070008357 DNA binding site [nucleotide binding] 880070008358 Int/Topo IB signature motif; other site 880070008359 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 880070008360 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 880070008361 Methyltransferase domain; Region: Methyltransf_23; pfam13489 880070008362 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 880070008363 S-adenosylmethionine binding site [chemical binding]; other site 880070008364 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 880070008365 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 880070008366 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 880070008367 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 880070008368 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 880070008369 active site residue [active] 880070008370 Predicted transporter component [General function prediction only]; Region: COG2391 880070008371 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 880070008372 Sulphur transport; Region: Sulf_transp; pfam04143 880070008373 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 880070008374 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 880070008375 Walker A/P-loop; other site 880070008376 ATP binding site [chemical binding]; other site 880070008377 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 880070008378 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 880070008379 ABC transporter signature motif; other site 880070008380 Walker B; other site 880070008381 D-loop; other site 880070008382 H-loop/switch region; other site 880070008383 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 880070008384 putative peroxiredoxin; Provisional; Region: PRK13191 880070008385 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 880070008386 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 880070008387 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 880070008388 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880070008389 active site 880070008390 Class I aldolases; Region: Aldolase_Class_I; cl17187 880070008391 catalytic residue [active] 880070008392 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 880070008393 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 880070008394 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 880070008395 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 880070008396 Neutral/alkaline non-lysosomal ceramidase; Region: Ceramidase_alk; cl04712 880070008397 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 880070008398 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 880070008399 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 880070008400 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 880070008401 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 880070008402 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 880070008403 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 880070008404 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 880070008405 putative NAD(P) binding site [chemical binding]; other site 880070008406 catalytic Zn binding site [ion binding]; other site 880070008407 structural Zn binding site [ion binding]; other site 880070008408 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 880070008409 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 880070008410 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 880070008411 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 880070008412 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 880070008413 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 880070008414 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 880070008415 pyruvate kinase; Validated; Region: PRK08187 880070008416 active site 880070008417 domain interfaces; other site 880070008418 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 880070008419 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 880070008420 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 880070008421 active site residue [active] 880070008422 FeoA domain; Region: FeoA; pfam04023 880070008423 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 880070008424 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 880070008425 G1 box; other site 880070008426 GTP/Mg2+ binding site [chemical binding]; other site 880070008427 Switch I region; other site 880070008428 G2 box; other site 880070008429 G3 box; other site 880070008430 Switch II region; other site 880070008431 G4 box; other site 880070008432 G5 box; other site 880070008433 Nucleoside recognition; Region: Gate; pfam07670 880070008434 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 880070008435 Nucleoside recognition; Region: Gate; pfam07670 880070008436 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 880070008437 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 880070008438 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 880070008439 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 880070008440 E3 interaction surface; other site 880070008441 lipoyl attachment site [posttranslational modification]; other site 880070008442 HlyD family secretion protein; Region: HlyD_3; pfam13437 880070008443 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 880070008444 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880070008445 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 880070008446 DNA binding residues [nucleotide binding] 880070008447 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 880070008448 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 880070008449 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 880070008450 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 880070008451 FMN binding site [chemical binding]; other site 880070008452 active site 880070008453 substrate binding site [chemical binding]; other site 880070008454 catalytic residue [active] 880070008455 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 880070008456 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 880070008457 dimerization interface [polypeptide binding]; other site 880070008458 ATP binding site [chemical binding]; other site 880070008459 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 880070008460 dimerization interface [polypeptide binding]; other site 880070008461 ATP binding site [chemical binding]; other site 880070008462 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 880070008463 putative active site [active] 880070008464 catalytic triad [active] 880070008465 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 880070008466 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 880070008467 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 880070008468 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 880070008469 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 880070008470 Outer membrane efflux protein; Region: OEP; pfam02321 880070008471 Outer membrane efflux protein; Region: OEP; pfam02321 880070008472 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 880070008473 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 880070008474 HlyD family secretion protein; Region: HlyD_3; pfam13437 880070008475 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 880070008476 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 880070008477 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 880070008478 intersubunit interface [polypeptide binding]; other site 880070008479 active site 880070008480 Zn2+ binding site [ion binding]; other site 880070008481 L-arabinose isomerase; Provisional; Region: PRK02929 880070008482 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 880070008483 hexamer (dimer of trimers) interface [polypeptide binding]; other site 880070008484 trimer interface [polypeptide binding]; other site 880070008485 substrate binding site [chemical binding]; other site 880070008486 Mn binding site [ion binding]; other site 880070008487 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 880070008488 HEAT repeats; Region: HEAT_2; pfam13646 880070008489 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 880070008490 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 880070008491 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 880070008492 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 880070008493 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 880070008494 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 880070008495 active site 880070008496 metal binding site [ion binding]; metal-binding site 880070008497 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 880070008498 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 880070008499 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 880070008500 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 880070008501 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 880070008502 RNA binding site [nucleotide binding]; other site 880070008503 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 880070008504 non-specific DNA binding site [nucleotide binding]; other site 880070008505 Predicted transcriptional regulator [Transcription]; Region: COG2932 880070008506 salt bridge; other site 880070008507 sequence-specific DNA binding site [nucleotide binding]; other site 880070008508 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 880070008509 Catalytic site [active] 880070008510 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 880070008511 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 880070008512 Domain of unknown function (DUF4174); Region: DUF4174; pfam13778 880070008513 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 880070008514 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 880070008515 active site 880070008516 HIGH motif; other site 880070008517 KMSKS motif; other site 880070008518 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 880070008519 tRNA binding surface [nucleotide binding]; other site 880070008520 anticodon binding site; other site 880070008521 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 880070008522 dimer interface [polypeptide binding]; other site 880070008523 putative tRNA-binding site [nucleotide binding]; other site 880070008524 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070008525 Sulfatase; Region: Sulfatase; pfam00884 880070008526 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 880070008527 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 880070008528 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 880070008529 active site 880070008530 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 880070008531 Beta-lactamase; Region: Beta-lactamase; pfam00144 880070008532 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 880070008533 Cation efflux family; Region: Cation_efflux; pfam01545 880070008534 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 880070008535 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 880070008536 active site 880070008537 Zn binding site [ion binding]; other site 880070008538 DinB superfamily; Region: DinB_2; pfam12867 880070008539 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 880070008540 catalytic residues [active] 880070008541 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; cl00509 880070008542 active site 2 [active] 880070008543 active site 1 [active] 880070008544 Peptidase family M48; Region: Peptidase_M48; pfam01435 880070008545 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 880070008546 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 880070008547 Alpha-glucosidase II (alpha-D-glucoside glucohydrolase) is a glycosyl hydrolase family 31 (GH31) enzyme, found in bacteria and plants, which has exo-alpha-1,4-glucosidase and oligo-1,6-glucosidase activities. Alpha-glucosidase II has been characterized...; Region: GH31_glucosidase_II_MalA; cd06604 880070008548 trimer interface [polypeptide binding]; other site 880070008549 active site 880070008550 homohexamer (dimer of homotrimer) interface [polypeptide binding]; other site 880070008551 catalytic site [active] 880070008552 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 880070008553 Zn binding site [ion binding]; other site 880070008554 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 880070008555 Protein export membrane protein; Region: SecD_SecF; cl14618 880070008556 Protein export membrane protein; Region: SecD_SecF; cl14618 880070008557 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; uncharacterized family 2; Region: EEP-2; cd09084 880070008558 putative catalytic site [active] 880070008559 putative metal binding site [ion binding]; other site 880070008560 putative phosphate binding site [ion binding]; other site 880070008561 Protein of unknown function (DUF2911); Region: DUF2911; pfam11138 880070008562 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 880070008563 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 880070008564 active site 880070008565 putative bifunctional trehalose-6-phosphate synthase/HAD hydrolase subfamily IIB; Provisional; Region: PRK14501 880070008566 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 880070008567 active site 880070008568 homotetramer interface [polypeptide binding]; other site 880070008569 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 880070008570 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 880070008571 nudix motif; other site 880070008572 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 880070008573 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070008574 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070008575 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070008576 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 880070008577 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 880070008578 starch binding outer membrane protein SusD; Region: SusD; cl17845 880070008579 SusD family; Region: SusD; pfam07980 880070008580 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 880070008581 Glycosaminoglycan (GAG) polysaccharide lyase family. This family consists of a group of secreted bacterial lyase enzymes capable of acting on glycosaminoglycans, such as hyaluronan and chondroitin, in the extracellular matrix of host tissues; Region: GAG_Lyase; cl17706 880070008582 substrate binding site [chemical binding]; other site 880070008583 catalytic residues [active] 880070008584 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 880070008585 Uncharacterized conserved protein [Function unknown]; Region: COG3586 880070008586 Transposase; Region: DEDD_Tnp_IS110; pfam01548 880070008587 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 880070008588 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 880070008589 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 880070008590 putative active site [active] 880070008591 putative metal binding site [ion binding]; other site 880070008592 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 880070008593 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 880070008594 TPR motif; other site 880070008595 binding surface 880070008596 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 880070008597 GspL periplasmic domain; Region: GspL_C; cl14909 880070008598 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 880070008599 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 880070008600 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 880070008601 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 880070008602 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 880070008603 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 880070008604 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 880070008605 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 880070008606 active site 880070008607 Transposase [DNA replication, recombination, and repair]; Region: COG5421 880070008608 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 880070008609 non-specific DNA binding site [nucleotide binding]; other site 880070008610 salt bridge; other site 880070008611 sequence-specific DNA binding site [nucleotide binding]; other site 880070008612 Predicted integral membrane protein [Function unknown]; Region: COG5616 880070008613 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 880070008614 binding surface 880070008615 TPR motif; other site 880070008616 Tetratricopeptide repeat; Region: TPR_9; pfam13371 880070008617 Helix-turn-helix domain; Region: HTH_18; pfam12833 880070008618 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 880070008619 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 880070008620 TPR motif; other site 880070008621 binding surface 880070008622 Protein of unknown function (DUF1186); Region: DUF1186; pfam06685 880070008623 SEC-C motif; Region: SEC-C; pfam02810 880070008624 Right handed beta helix region; Region: Beta_helix; pfam13229 880070008625 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; pfam09907 880070008626 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 880070008627 non-specific DNA binding site [nucleotide binding]; other site 880070008628 salt bridge; other site 880070008629 sequence-specific DNA binding site [nucleotide binding]; other site 880070008630 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 880070008631 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 880070008632 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 880070008633 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 880070008634 dimerization interface [polypeptide binding]; other site 880070008635 active site 880070008636 DNA primase, catalytic core; Region: dnaG; TIGR01391 880070008637 CHC2 zinc finger; Region: zf-CHC2; pfam01807 880070008638 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 880070008639 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 880070008640 active site 880070008641 metal binding site [ion binding]; metal-binding site 880070008642 interdomain interaction site; other site 880070008643 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 880070008644 antiporter inner membrane protein; Provisional; Region: PRK11670 880070008645 Domain of unknown function DUF59; Region: DUF59; pfam01883 880070008646 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 880070008647 Walker A motif; other site 880070008648 NifU-like domain; Region: NifU; cl00484 880070008649 Zinc-dependent metalloprotease, pappalysin_like subfamily. The pregnancy-associated plasma protein A (PAPP-A or pappalysin-1) cleaves insulin-like growth factor-binding proteins 4 and 5, thereby promoting cell growth by releasing bound growth factor; Region: ZnMc_pappalysin_like; cd04275 880070008650 active site 880070008651 Meprin, A5 protein, and protein tyrosine phosphatase Mu (MAM) domain. MAM is an extracellular domain which mediates protein-protein interactions and is found in a diverse set of proteins, many of which are known to function in cell adhesion. Members...; Region: MAM; cl02479 880070008652 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880070008653 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 880070008654 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 880070008655 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 880070008656 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880070008657 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 880070008658 active site residue [active] 880070008659 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_2; cd06160 880070008660 active site 880070008661 Peptidase family M50; Region: Peptidase_M50; pfam02163 880070008662 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 880070008663 putative substrate binding region [chemical binding]; other site 880070008664 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 880070008665 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 880070008666 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 880070008667 Cytokine receptor motif; other site 880070008668 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 880070008669 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 880070008670 active site 880070008671 metal binding site [ion binding]; metal-binding site 880070008672 putative carbohydrate kinase; Provisional; Region: PRK10565 880070008673 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 880070008674 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 880070008675 putative substrate binding site [chemical binding]; other site 880070008676 putative ATP binding site [chemical binding]; other site 880070008677 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 880070008678 RNA/DNA hybrid binding site [nucleotide binding]; other site 880070008679 active site 880070008680 Mannosyl oligosaccharide glucosidase; Region: Glyco_hydro_63; pfam03200 880070008681 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 880070008682 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 880070008683 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 880070008684 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 880070008685 putative active site [active] 880070008686 putative metal binding site [ion binding]; other site 880070008687 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 880070008688 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 880070008689 ATP binding site [chemical binding]; other site 880070008690 Mg2+ binding site [ion binding]; other site 880070008691 G-X-G motif; other site 880070008692 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 880070008693 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 880070008694 active site 880070008695 phosphorylation site [posttranslational modification] 880070008696 intermolecular recognition site; other site 880070008697 dimerization interface [polypeptide binding]; other site 880070008698 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 880070008699 Walker A motif; other site 880070008700 ATP binding site [chemical binding]; other site 880070008701 Walker B motif; other site 880070008702 arginine finger; other site 880070008703 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 880070008704 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 880070008705 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 880070008706 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 880070008707 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 880070008708 putative active site [active] 880070008709 putative metal binding site [ion binding]; other site 880070008710 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 880070008711 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 880070008712 Walker A motif; other site 880070008713 ATP binding site [chemical binding]; other site 880070008714 Walker B motif; other site 880070008715 arginine finger; other site 880070008716 Peptidase family M41; Region: Peptidase_M41; pfam01434 880070008717 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 880070008718 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 880070008719 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 880070008720 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 880070008721 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 880070008722 homotetramer interface [polypeptide binding]; other site 880070008723 ligand binding site [chemical binding]; other site 880070008724 catalytic site [active] 880070008725 NAD binding site [chemical binding]; other site 880070008726 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 880070008727 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 880070008728 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 880070008729 non-specific DNA interactions [nucleotide binding]; other site 880070008730 DNA binding site [nucleotide binding] 880070008731 sequence specific DNA binding site [nucleotide binding]; other site 880070008732 putative cAMP binding site [chemical binding]; other site 880070008733 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 880070008734 Two component regulator propeller; Region: Reg_prop; pfam07494 880070008735 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 880070008736 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880070008737 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 880070008738 dimer interface [polypeptide binding]; other site 880070008739 phosphorylation site [posttranslational modification] 880070008740 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 880070008741 ATP binding site [chemical binding]; other site 880070008742 Mg2+ binding site [ion binding]; other site 880070008743 G-X-G motif; other site 880070008744 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 880070008745 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 880070008746 active site 880070008747 phosphorylation site [posttranslational modification] 880070008748 intermolecular recognition site; other site 880070008749 dimerization interface [polypeptide binding]; other site 880070008750 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 880070008751 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 880070008752 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 880070008753 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 880070008754 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 880070008755 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 880070008756 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 880070008757 sugar binding site [chemical binding]; other site 880070008758 Protein of unknown function (DUF3037); Region: DUF3037; pfam11236 880070008759 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 880070008760 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 880070008761 ligand binding site [chemical binding]; other site 880070008762 flexible hinge region; other site 880070008763 Outer membrane efflux protein; Region: OEP; pfam02321 880070008764 Outer membrane efflux protein; Region: OEP; pfam02321 880070008765 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 880070008766 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 880070008767 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 880070008768 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 880070008769 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 880070008770 Penicillin amidase; Region: Penicil_amidase; pfam01804 880070008771 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 880070008772 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 880070008773 active site 880070008774 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 880070008775 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 880070008776 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 880070008777 putative active site [active] 880070008778 metal binding site [ion binding]; metal-binding site 880070008779 Methyltransferase domain; Region: Methyltransf_31; pfam13847 880070008780 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 880070008781 S-adenosylmethionine binding site [chemical binding]; other site 880070008782 Protein of unknown function (DUF975); Region: DUF975; cl10504 880070008783 Protein of unknown function (DUF975); Region: DUF975; cl10504 880070008784 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 880070008785 putative active site [active] 880070008786 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 880070008787 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 880070008788 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 880070008789 Domain of unknown function (DUF4221); Region: DUF4221; pfam13970 880070008790 Esterase/lipase [General function prediction only]; Region: COG1647 880070008791 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 880070008792 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 880070008793 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 880070008794 Peptidase M1 family Aminopeptidase N; Region: M1_APN_4; cd09603 880070008795 Zn binding site [ion binding]; other site 880070008796 Creatinine amidohydrolase; Region: Creatininase; pfam02633 880070008797 hexulose-6-phosphate isomerase, putative; Region: hxl6Piso_put; TIGR00542 880070008798 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 880070008799 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 880070008800 Amidohydrolase; Region: Amidohydro_4; pfam13147 880070008801 active site 880070008802 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 880070008803 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 880070008804 NAD(P) binding site [chemical binding]; other site 880070008805 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 880070008806 Ligand Binding Site [chemical binding]; other site 880070008807 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 880070008808 Ligand Binding Site [chemical binding]; other site 880070008809 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 880070008810 active site 880070008811 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 880070008812 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 880070008813 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 880070008814 ATP binding site [chemical binding]; other site 880070008815 putative Mg++ binding site [ion binding]; other site 880070008816 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 880070008817 nucleotide binding region [chemical binding]; other site 880070008818 ATP-binding site [chemical binding]; other site 880070008819 DbpA RNA binding domain; Region: DbpA; pfam03880 880070008820 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 880070008821 ribulokinase; Provisional; Region: PRK04123 880070008822 Ribulokinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RBK; cd07781 880070008823 N- and C-terminal domain interface [polypeptide binding]; other site 880070008824 active site 880070008825 MgATP binding site [chemical binding]; other site 880070008826 catalytic site [active] 880070008827 metal binding site [ion binding]; metal-binding site 880070008828 carbohydrate binding site [chemical binding]; other site 880070008829 homodimer interface [polypeptide binding]; other site 880070008830 Planctomycete cytochrome C; Region: PSCyt1; pfam07635 880070008831 Protein of unknown function (DUF1549); Region: PSCyt2; pfam07583 880070008832 Protein of unknown function (DUF1553); Region: PSD1; pfam07587 880070008833 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 880070008834 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 880070008835 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 880070008836 active site 880070008837 catalytic tetrad [active] 880070008838 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 880070008839 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 880070008840 active site 880070008841 catalytic tetrad [active] 880070008842 Response regulator receiver domain; Region: Response_reg; pfam00072 880070008843 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 880070008844 active site 880070008845 phosphorylation site [posttranslational modification] 880070008846 intermolecular recognition site; other site 880070008847 dimerization interface [polypeptide binding]; other site 880070008848 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070008849 Sulfatase; Region: Sulfatase; pfam00884 880070008850 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 880070008851 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 880070008852 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 880070008853 NAD(P) binding site [chemical binding]; other site 880070008854 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 880070008855 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 880070008856 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 880070008857 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070008858 Sulfatase; Region: Sulfatase; pfam00884 880070008859 Family description; Region: VCBS; pfam13517 880070008860 Family description; Region: VCBS; pfam13517 880070008861 Family description; Region: VCBS; pfam13517 880070008862 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 880070008863 HEAT repeats; Region: HEAT_2; pfam13646 880070008864 HEAT repeats; Region: HEAT_2; pfam13646 880070008865 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 880070008866 Cytochrome c; Region: Cytochrom_C; pfam00034 880070008867 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 880070008868 Domain of unknown function (DUF4301); Region: DUF4301; pfam14134 880070008869 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880070008870 Q-loop/lid; other site 880070008871 ABC transporter signature motif; other site 880070008872 H-loop/switch region; other site 880070008873 Interphotoreceptor retinoid-binding protein; serine protease family S41; Region: Peptidase_S41_IRBP; cd07563 880070008874 active site triad [active] 880070008875 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 880070008876 HEAT repeats; Region: HEAT_2; pfam13646 880070008877 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 880070008878 Cytochrome c; Region: Cytochrom_C; pfam00034 880070008879 Arylamine N-acetyltransferase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NhoA; COG2162 880070008880 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 880070008881 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 880070008882 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 880070008883 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 880070008884 active site 880070008885 catalytic triad [active] 880070008886 oxyanion hole [active] 880070008887 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070008888 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070008889 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070008890 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 880070008891 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 880070008892 starch binding outer membrane protein SusD; Region: SusD; cl17845 880070008893 Sulfatase; Region: Sulfatase; pfam00884 880070008894 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070008895 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070008896 Sulfatase; Region: Sulfatase; pfam00884 880070008897 Protein of unknown function (DUF1593); Region: DUF1593; pfam07632 880070008898 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 880070008899 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070008900 Sulfatase; Region: Sulfatase; cl17466 880070008901 Sulfatase; Region: Sulfatase; cl17466 880070008902 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u1; cd11477 880070008903 Na binding site [ion binding]; other site 880070008904 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070008905 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 880070008906 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 880070008907 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 880070008908 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 880070008909 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 880070008910 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 880070008911 acyl-activating enzyme (AAE) consensus motif; other site 880070008912 putative AMP binding site [chemical binding]; other site 880070008913 putative active site [active] 880070008914 putative CoA binding site [chemical binding]; other site 880070008915 maltose O-acetyltransferase; Provisional; Region: PRK10092 880070008916 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 880070008917 active site 880070008918 substrate binding site [chemical binding]; other site 880070008919 trimer interface [polypeptide binding]; other site 880070008920 CoA binding site [chemical binding]; other site 880070008921 DinB superfamily; Region: DinB_2; pfam12867 880070008922 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 880070008923 active site 880070008924 catalytic site [active] 880070008925 substrate binding site [chemical binding]; other site 880070008926 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 880070008927 GIY-YIG motif/motif A; other site 880070008928 active site 880070008929 catalytic site [active] 880070008930 putative DNA binding site [nucleotide binding]; other site 880070008931 metal binding site [ion binding]; metal-binding site 880070008932 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 880070008933 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 880070008934 active site 880070008935 catalytic tetrad [active] 880070008936 NAD-dependent deacetylase; Provisional; Region: PRK00481 880070008937 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 880070008938 NAD+ binding site [chemical binding]; other site 880070008939 substrate binding site [chemical binding]; other site 880070008940 Zn binding site [ion binding]; other site 880070008941 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 880070008942 ligand binding site [chemical binding]; other site 880070008943 HEAT repeats; Region: HEAT_2; pfam13646 880070008944 HEAT repeats; Region: HEAT_2; pfam13646 880070008945 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 880070008946 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 880070008947 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 880070008948 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 880070008949 DNA topoisomerase I; Provisional; Region: PRK08780 880070008950 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 880070008951 active site 880070008952 interdomain interaction site; other site 880070008953 putative metal-binding site [ion binding]; other site 880070008954 nucleotide binding site [chemical binding]; other site 880070008955 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 880070008956 domain I; other site 880070008957 DNA binding groove [nucleotide binding] 880070008958 phosphate binding site [ion binding]; other site 880070008959 domain II; other site 880070008960 domain III; other site 880070008961 nucleotide binding site [chemical binding]; other site 880070008962 catalytic site [active] 880070008963 domain IV; other site 880070008964 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 880070008965 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 880070008966 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 880070008967 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 880070008968 catalytic core [active] 880070008969 agmatinase; Region: agmatinase; TIGR01230 880070008970 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 880070008971 putative active site [active] 880070008972 Mn binding site [ion binding]; other site 880070008973 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_14; cd13139 880070008974 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 880070008975 Trm112p-like protein; Region: Trm112p; cl01066 880070008976 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 880070008977 active site 880070008978 pyrophosphate binding site [ion binding]; other site 880070008979 thiamine phosphate binding site [chemical binding]; other site 880070008980 AIR synthase (PurM) related protein, subgroup 1 of unknown function. The family of PurM related proteins includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM synthase and Selenophosphate synthetase (SelD). They all contain two...; Region: PurM-like1; cd06061 880070008981 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypE; COG0309 880070008982 dimerization interface [polypeptide binding]; other site 880070008983 putative ATP binding site [chemical binding]; other site 880070008984 Methyltransferase domain; Region: Methyltransf_23; pfam13489 880070008985 Methyltransferase domain; Region: Methyltransf_11; pfam08241 880070008986 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 880070008987 heme binding pocket [chemical binding]; other site 880070008988 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 880070008989 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070008990 Sulfatase; Region: Sulfatase; pfam00884 880070008991 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 880070008992 Putative transposase; Region: Y2_Tnp; pfam04986 880070008993 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 880070008994 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 880070008995 putative active site [active] 880070008996 putative NTP binding site [chemical binding]; other site 880070008997 putative nucleic acid binding site [nucleotide binding]; other site 880070008998 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 880070008999 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 880070009000 Putative transposase; Region: Y2_Tnp; pfam04986 880070009001 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 880070009002 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 880070009003 putative active site [active] 880070009004 putative NTP binding site [chemical binding]; other site 880070009005 putative nucleic acid binding site [nucleotide binding]; other site 880070009006 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 880070009007 Domain of unknown function (DUF4304); Region: DUF4304; pfam14137 880070009008 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 880070009009 Beta-lactamase; Region: Beta-lactamase; pfam00144 880070009010 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 880070009011 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 880070009012 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 880070009013 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 880070009014 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 880070009015 DNA binding residues [nucleotide binding] 880070009016 FecR protein; Region: FecR; pfam04773 880070009017 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070009018 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070009019 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070009020 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 880070009021 starch binding outer membrane protein SusD; Region: SusD; cd08977 880070009022 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 880070009023 Domain of unknown function (DUF4221); Region: DUF4221; pfam13970 880070009024 LytTr DNA-binding domain; Region: LytTR; smart00850 880070009025 Methyltransferase FkbM domain; Region: Methyltransf_21; cl17387 880070009026 Glycosyltransferase like family 2; Region: Glyco_tranf_2_2; pfam10111 880070009027 N-terminal domain of galactosyltransferase; Region: Glyco_transf_7C; cl17476 880070009028 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 880070009029 Kelch motif; Region: Kelch_5; pfam13854 880070009030 Galactose oxidase, central domain; Region: Kelch_3; cl02701 880070009031 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 880070009032 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 880070009033 putative active site [active] 880070009034 putative metal binding site [ion binding]; other site 880070009035 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070009036 Sulfatase; Region: Sulfatase; pfam00884 880070009037 Planctomycete cytochrome C; Region: PSCyt1; pfam07635 880070009038 Protein of unknown function (DUF1549); Region: PSCyt2; pfam07583 880070009039 Protein of unknown function (DUF1553); Region: PSD1; pfam07587 880070009040 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070009041 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070009042 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070009043 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 880070009044 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 880070009045 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 880070009046 starch binding outer membrane protein SusD; Region: SusD; cd08977 880070009047 SusD family; Region: SusD; pfam07980 880070009048 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070009049 Sulfatase; Region: Sulfatase; pfam00884 880070009050 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070009051 Sulfatase; Region: Sulfatase; pfam00884 880070009052 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070009053 Sulfatase; Region: Sulfatase; pfam00884 880070009054 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070009055 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070009056 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070009057 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 880070009058 starch binding outer membrane protein SusD; Region: SusD; cd08977 880070009059 Lipocalin-like domain; Region: Lipocalin_4; pfam13648 880070009060 Family description; Region: VCBS; pfam13517 880070009061 Family description; Region: VCBS; pfam13517 880070009062 Family description; Region: VCBS; pfam13517 880070009063 Family description; Region: VCBS; pfam13517 880070009064 Family description; Region: VCBS; pfam13517 880070009065 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 880070009066 Family description; Region: VCBS; pfam13517 880070009067 Family description; Region: VCBS; pfam13517 880070009068 Family description; Region: VCBS; pfam13517 880070009069 Family description; Region: VCBS; pfam13517 880070009070 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 880070009071 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 880070009072 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 880070009073 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 880070009074 Cytochrome c; Region: Cytochrom_C; cl11414 880070009075 Amidases related to nicotinamidase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PncA; COG1335 880070009076 Isochorismatase family; Region: Isochorismatase; pfam00857 880070009077 catalytic triad [active] 880070009078 conserved cis-peptide bond; other site 880070009079 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070009080 Sulfatase; Region: Sulfatase; pfam00884 880070009081 Sulfatase; Region: Sulfatase; cl17466 880070009082 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070009083 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 880070009084 starch binding outer membrane protein SusD; Region: SusD; cd08977 880070009085 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070009086 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070009087 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070009088 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 880070009089 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 880070009090 starch binding outer membrane protein SusD; Region: SusD; cd08977 880070009091 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070009092 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070009093 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070009094 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 880070009095 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 880070009096 FecR protein; Region: FecR; pfam04773 880070009097 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 880070009098 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880070009099 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 880070009100 DNA binding residues [nucleotide binding] 880070009101 Repair protein; Region: Repair_PSII; pfam04536 880070009102 Repair protein; Region: Repair_PSII; pfam04536 880070009103 LemA family; Region: LemA; pfam04011 880070009104 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 880070009105 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 880070009106 active site 880070009107 catalytic tetrad [active] 880070009108 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 880070009109 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 880070009110 N-terminal plug; other site 880070009111 ligand-binding site [chemical binding]; other site 880070009112 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 880070009113 active site 880070009114 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 880070009115 trimer interface [polypeptide binding]; other site 880070009116 active site 880070009117 substrate binding site [chemical binding]; other site 880070009118 CoA binding site [chemical binding]; other site 880070009119 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 880070009120 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 880070009121 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 880070009122 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 880070009123 nucleotide binding site [chemical binding]; other site 880070009124 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 880070009125 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 880070009126 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 880070009127 dimer interface [polypeptide binding]; other site 880070009128 phosphorylation site [posttranslational modification] 880070009129 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 880070009130 ATP binding site [chemical binding]; other site 880070009131 Mg2+ binding site [ion binding]; other site 880070009132 G-X-G motif; other site 880070009133 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 880070009134 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 880070009135 active site 880070009136 phosphorylation site [posttranslational modification] 880070009137 intermolecular recognition site; other site 880070009138 dimerization interface [polypeptide binding]; other site 880070009139 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 880070009140 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 880070009141 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880070009142 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 880070009143 dimer interface [polypeptide binding]; other site 880070009144 phosphorylation site [posttranslational modification] 880070009145 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 880070009146 ATP binding site [chemical binding]; other site 880070009147 Mg2+ binding site [ion binding]; other site 880070009148 G-X-G motif; other site 880070009149 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 880070009150 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 880070009151 active site 880070009152 phosphorylation site [posttranslational modification] 880070009153 intermolecular recognition site; other site 880070009154 dimerization interface [polypeptide binding]; other site 880070009155 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 880070009156 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 880070009157 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 880070009158 putative molybdopterin cofactor binding site [chemical binding]; other site 880070009159 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 880070009160 putative molybdopterin cofactor binding site; other site 880070009161 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070009162 Sulfatase; Region: Sulfatase; pfam00884 880070009163 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 880070009164 Trp docking motif [polypeptide binding]; other site 880070009165 putative active site [active] 880070009166 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 880070009167 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 880070009168 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 880070009169 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 880070009170 Interdomain contacts; other site 880070009171 Cytokine receptor motif; other site 880070009172 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 880070009173 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 880070009174 active site 880070009175 metal binding site [ion binding]; metal-binding site 880070009176 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 880070009177 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 880070009178 ATP binding site [chemical binding]; other site 880070009179 putative Mg++ binding site [ion binding]; other site 880070009180 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 880070009181 nucleotide binding region [chemical binding]; other site 880070009182 ATP-binding site [chemical binding]; other site 880070009183 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 880070009184 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 880070009185 Protein of unknown function (DUF2911); Region: DUF2911; pfam11138 880070009186 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 880070009187 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 880070009188 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 880070009189 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 880070009190 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 880070009191 Ligand binding site; other site 880070009192 Putative Catalytic site; other site 880070009193 DXD motif; other site 880070009194 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 880070009195 Coenzyme A binding pocket [chemical binding]; other site 880070009196 GDP-fucose protein O-fucosyltransferase and related proteins; Region: O-FucT_like; cl16914 880070009197 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 880070009198 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 880070009199 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880070009200 Walker A/P-loop; other site 880070009201 ATP binding site [chemical binding]; other site 880070009202 Q-loop/lid; other site 880070009203 ABC transporter signature motif; other site 880070009204 Walker B; other site 880070009205 D-loop; other site 880070009206 H-loop/switch region; other site 880070009207 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 880070009208 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 880070009209 putative trimer interface [polypeptide binding]; other site 880070009210 putative CoA binding site [chemical binding]; other site 880070009211 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 880070009212 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 880070009213 active site 880070009214 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 880070009215 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 880070009216 active site 880070009217 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 880070009218 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 880070009219 active site 880070009220 4-alpha-L-fucosyltransferase glycosyl transferase group 56; Region: Glyco_transf_56; cl07929 880070009221 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 880070009222 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 880070009223 putative ADP-binding pocket [chemical binding]; other site 880070009224 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 880070009225 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 880070009226 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 880070009227 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 880070009228 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 880070009229 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 880070009230 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u5; cd10929 880070009231 putative active site [active] 880070009232 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 880070009233 active site 880070009234 dimer interfaces [polypeptide binding]; other site 880070009235 catalytic residues [active] 880070009236 6-phosphofructokinase; Provisional; Region: PRK03202 880070009237 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 880070009238 active site 880070009239 ADP/pyrophosphate binding site [chemical binding]; other site 880070009240 dimerization interface [polypeptide binding]; other site 880070009241 allosteric effector site; other site 880070009242 fructose-1,6-bisphosphate binding site; other site 880070009243 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 880070009244 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 880070009245 active site pocket [active] 880070009246 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 880070009247 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 880070009248 putative active site [active] 880070009249 Zn binding site [ion binding]; other site 880070009250 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 880070009251 Deoxyhypusine synthase; Region: DS; cl00826 880070009252 deoxyhypusine synthase; Region: dhys; TIGR00321 880070009253 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 880070009254 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 880070009255 ligand binding site [chemical binding]; other site 880070009256 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 880070009257 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 880070009258 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 880070009259 Histidine kinase; Region: His_kinase; pfam06580 880070009260 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 880070009261 Response regulator receiver domain; Region: Response_reg; pfam00072 880070009262 active site 880070009263 phosphorylation site [posttranslational modification] 880070009264 intermolecular recognition site; other site 880070009265 dimerization interface [polypeptide binding]; other site 880070009266 LytTr DNA-binding domain; Region: LytTR; smart00850 880070009267 methionine sulfoxide reductase A; Provisional; Region: PRK14054 880070009268 methionine sulfoxide reductase B; Provisional; Region: PRK00222 880070009269 SelR domain; Region: SelR; pfam01641 880070009270 phosphodiesterase; Provisional; Region: PRK12704 880070009271 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 880070009272 catalytic site [active] 880070009273 BNR repeat-like domain; Region: BNR_2; pfam13088 880070009274 Asp-box motif; other site 880070009275 PAS domain S-box; Region: sensory_box; TIGR00229 880070009276 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 880070009277 putative active site [active] 880070009278 heme pocket [chemical binding]; other site 880070009279 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880070009280 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 880070009281 dimer interface [polypeptide binding]; other site 880070009282 phosphorylation site [posttranslational modification] 880070009283 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 880070009284 ATP binding site [chemical binding]; other site 880070009285 Mg2+ binding site [ion binding]; other site 880070009286 G-X-G motif; other site 880070009287 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 880070009288 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 880070009289 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 880070009290 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 880070009291 4Fe-4S binding domain; Region: Fer4_5; pfam12801 880070009292 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 880070009293 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 880070009294 DXD motif; other site 880070009295 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 880070009296 Ligand binding site; other site 880070009297 Putative Catalytic site; other site 880070009298 DXD motif; other site 880070009299 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 880070009300 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 880070009301 active site 880070009302 phosphorylation site [posttranslational modification] 880070009303 intermolecular recognition site; other site 880070009304 dimerization interface [polypeptide binding]; other site 880070009305 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 880070009306 DNA binding residues [nucleotide binding] 880070009307 dimerization interface [polypeptide binding]; other site 880070009308 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 880070009309 PAS domain; Region: PAS_9; pfam13426 880070009310 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 880070009311 Histidine kinase; Region: HisKA_3; pfam07730 880070009312 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 880070009313 ATP binding site [chemical binding]; other site 880070009314 Mg2+ binding site [ion binding]; other site 880070009315 G-X-G motif; other site 880070009316 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 880070009317 nitrite reductase subunit NirD; Provisional; Region: PRK14989 880070009318 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 880070009319 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 880070009320 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 880070009321 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 880070009322 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 880070009323 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 880070009324 active site 880070009325 SAM binding site [chemical binding]; other site 880070009326 homodimer interface [polypeptide binding]; other site 880070009327 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 880070009328 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 880070009329 Rubredoxin [Energy production and conversion]; Region: COG1773 880070009330 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 880070009331 iron binding site [ion binding]; other site 880070009332 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 880070009333 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 880070009334 [4Fe-4S] binding site [ion binding]; other site 880070009335 molybdopterin cofactor binding site; other site 880070009336 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 880070009337 molybdopterin cofactor binding site; other site 880070009338 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 880070009339 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 880070009340 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 880070009341 nitrate transmembrane transporter; Provisional; Region: PLN00028 880070009342 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 880070009343 putative substrate translocation pore; other site 880070009344 Patatin-like phospholipase; Region: Patatin; pfam01734 880070009345 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 880070009346 active site 880070009347 catalytic triad [active] 880070009348 oxyanion hole [active] 880070009349 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 880070009350 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 880070009351 active site 880070009352 catalytic tetrad [active] 880070009353 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070009354 Sulfatase; Region: Sulfatase; cl17466 880070009355 Sulfatase; Region: Sulfatase; cl17466 880070009356 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070009357 Sulfatase; Region: Sulfatase; cl17466 880070009358 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 880070009359 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 880070009360 DNA binding residues [nucleotide binding] 880070009361 FecR protein; Region: FecR; pfam04773 880070009362 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070009363 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070009364 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 880070009365 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 880070009366 starch binding outer membrane protein SusD; Region: SusD; cd08977 880070009367 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 880070009368 HEAT repeats; Region: HEAT_2; pfam13646 880070009369 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 880070009370 Cytochrome c; Region: Cytochrom_C; pfam00034 880070009371 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 880070009372 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 880070009373 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 880070009374 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 880070009375 Glycosyl hydrolases family 39; Region: Glyco_hydro_39; pfam01229 880070009376 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 880070009377 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 880070009378 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 880070009379 Predicted neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: COG4692 880070009380 Neutral/alkaline non-lysosomal ceramidase; Region: Ceramidase_alk; cl04712 880070009381 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 880070009382 HEAT repeats; Region: HEAT_2; pfam13646 880070009383 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 880070009384 Cytochrome c; Region: Cytochrom_C; pfam00034 880070009385 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 880070009386 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; cl12060 880070009387 DNA interaction; other site 880070009388 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 880070009389 Neutral/alkaline non-lysosomal ceramidase; Region: Ceramidase_alk; cl04712 880070009390 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 880070009391 Amidohydrolase; Region: Amidohydro_2; pfam04909 880070009392 active site 880070009393 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070009394 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 880070009395 Domain of unknown function (DUF4221); Region: DUF4221; pfam13970 880070009396 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 880070009397 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 880070009398 putative active site [active] 880070009399 heme pocket [chemical binding]; other site 880070009400 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 880070009401 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 880070009402 putative active site [active] 880070009403 heme pocket [chemical binding]; other site 880070009404 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880070009405 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 880070009406 dimer interface [polypeptide binding]; other site 880070009407 phosphorylation site [posttranslational modification] 880070009408 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 880070009409 ATP binding site [chemical binding]; other site 880070009410 Mg2+ binding site [ion binding]; other site 880070009411 G-X-G motif; other site 880070009412 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 880070009413 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 880070009414 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 880070009415 DNA binding residues [nucleotide binding] 880070009416 FecR protein; Region: FecR; pfam04773 880070009417 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070009418 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070009419 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070009420 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 880070009421 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 880070009422 starch binding outer membrane protein SusD; Region: SusD; cl17845 880070009423 SusD family; Region: SusD; pfam07980 880070009424 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 880070009425 Transposase domain (DUF772); Region: DUF772; pfam05598 880070009426 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 880070009427 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 880070009428 starch binding outer membrane protein SusD; Region: SusD; cd08977 880070009429 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 880070009430 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 880070009431 active site 880070009432 putative substrate binding pocket [chemical binding]; other site 880070009433 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 880070009434 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070009435 Sulfatase; Region: Sulfatase; cl17466 880070009436 YceI-like domain; Region: YceI; smart00867 880070009437 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 880070009438 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 880070009439 active site 880070009440 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 880070009441 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 880070009442 Methane oxygenase PmoA; Region: PmoA; pfam14100 880070009443 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 880070009444 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 880070009445 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 880070009446 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 880070009447 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 880070009448 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 880070009449 catalytic site [active] 880070009450 BNR repeat-like domain; Region: BNR_2; pfam13088 880070009451 Asp-box motif; other site 880070009452 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 880070009453 Uncharacterized hypothetical proteins similar to the catalytic domains of Phosphoinositide-specific phospholipaseand Glycerophosphodiester phosphodiesterases; Region: PI-PLCc_GDPD_SF_unchar3; cd08577 880070009454 putative active site [active] 880070009455 catalytic site [active] 880070009456 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 880070009457 dimer interface [polypeptide binding]; other site 880070009458 Alkaline phosphatase homologues; Region: alkPPc; smart00098 880070009459 active site 880070009460 short chain dehydrogenase; Provisional; Region: PRK07326 880070009461 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880070009462 NAD(P) binding site [chemical binding]; other site 880070009463 active site 880070009464 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 880070009465 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 880070009466 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 880070009467 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 880070009468 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u1; cd11477 880070009469 Na binding site [ion binding]; other site 880070009470 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 880070009471 Glycerophosphodiester phosphodiesterase domain of Agrobacterium tumefaciens and similar proteins; Region: GDPD_AtGDE_like; cd08566 880070009472 putative active site [active] 880070009473 catalytic site [active] 880070009474 putative metal binding site [ion binding]; other site 880070009475 oligomer interface [polypeptide binding]; other site 880070009476 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070009477 Sulfatase; Region: Sulfatase; pfam00884 880070009478 Domain of unknown function (DUF4221); Region: DUF4221; pfam13970 880070009479 Transcriptional regulators [Transcription]; Region: PurR; COG1609 880070009480 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 880070009481 DNA binding site [nucleotide binding] 880070009482 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 880070009483 dimerization interface [polypeptide binding]; other site 880070009484 ligand binding site [chemical binding]; other site 880070009485 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070009486 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070009487 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070009488 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 880070009489 starch binding outer membrane protein SusD; Region: SusD; cl17845 880070009490 SusD family; Region: SusD; pfam07980 880070009491 Sulfatase; Region: Sulfatase; cl17466 880070009492 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070009493 Carbohydrate Binding Module 6 (CBM6); appended to several carbohydrate binding enzymes, including several glycoside hydrolase (GH) family 26 mannanase domains; Region: CBM6_mannanase-like; cd04086 880070009494 putative metal binding site [ion binding]; other site 880070009495 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 880070009496 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070009497 Sulfatase; Region: Sulfatase; pfam00884 880070009498 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u1; cd11477 880070009499 Na binding site [ion binding]; other site 880070009500 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 880070009501 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 880070009502 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 880070009503 N-terminal Early set domain associated with the catalytic domain of cellulase; Region: E_set_Cellulase_N; cd02850 880070009504 Alginate lyase; Region: Alginate_lyase; pfam05426 880070009505 GAF domain; Region: GAF; pfam01590 880070009506 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 880070009507 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880070009508 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 880070009509 dimer interface [polypeptide binding]; other site 880070009510 phosphorylation site [posttranslational modification] 880070009511 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 880070009512 ATP binding site [chemical binding]; other site 880070009513 Mg2+ binding site [ion binding]; other site 880070009514 G-X-G motif; other site 880070009515 Protein of unknown function (DUF2911); Region: DUF2911; pfam11138 880070009516 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 880070009517 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 880070009518 putative active site [active] 880070009519 heme pocket [chemical binding]; other site 880070009520 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 880070009521 dimer interface [polypeptide binding]; other site 880070009522 phosphorylation site [posttranslational modification] 880070009523 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 880070009524 ATP binding site [chemical binding]; other site 880070009525 Mg2+ binding site [ion binding]; other site 880070009526 G-X-G motif; other site 880070009527 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 880070009528 active site 880070009529 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 880070009530 active site 880070009531 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 880070009532 SGNH_hydrolase subfamily. SGNH hydrolases are 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...; Region: SGNH_hydrolase_like_2; cd01834 880070009533 active site 880070009534 catalytic triad [active] 880070009535 oxyanion hole [active] 880070009536 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 880070009537 active site residue [active] 880070009538 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 880070009539 active site residue [active] 880070009540 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 880070009541 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 880070009542 dimerization interface [polypeptide binding]; other site 880070009543 DPS ferroxidase diiron center [ion binding]; other site 880070009544 ion pore; other site 880070009545 Aminoglycoside 3-N-acetyltransferase; Region: Antibiotic_NAT; pfam02522 880070009546 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 880070009547 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 880070009548 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 880070009549 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 880070009550 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 880070009551 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 880070009552 active site 880070009553 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 880070009554 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880070009555 NAD(P) binding site [chemical binding]; other site 880070009556 active site 880070009557 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 880070009558 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 880070009559 mannonate dehydratase; Provisional; Region: PRK03906 880070009560 mannonate dehydratase; Region: uxuA; TIGR00695 880070009561 D-mannonate oxidoreductase; Provisional; Region: PRK08277 880070009562 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880070009563 NAD(P) binding site [chemical binding]; other site 880070009564 active site 880070009565 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 880070009566 galactarate dehydratase; Region: galactar-dH20; TIGR03248 880070009567 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 880070009568 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 880070009569 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 880070009570 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 880070009571 DctM-like transporters; Region: DctM; pfam06808 880070009572 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 880070009573 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 880070009574 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 880070009575 non-specific DNA binding site [nucleotide binding]; other site 880070009576 salt bridge; other site 880070009577 sequence-specific DNA binding site [nucleotide binding]; other site 880070009578 Planctomycete cytochrome C; Region: PSCyt1; pfam07635 880070009579 Protein of unknown function (DUF1549); Region: PSCyt2; pfam07583 880070009580 Protein of unknown function (DUF1553); Region: PSD1; pfam07587 880070009581 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 880070009582 Sulfatase; Region: Sulfatase; cl17466 880070009583 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 880070009584 active site 880070009585 Zn binding site [ion binding]; other site 880070009586 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070009587 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070009588 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070009589 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 880070009590 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 880070009591 SusD family; Region: SusD; pfam07980 880070009592 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 880070009593 Coenzyme A binding pocket [chemical binding]; other site 880070009594 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070009595 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070009596 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070009597 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 880070009598 starch binding outer membrane protein SusD; Region: SusD; cd08977 880070009599 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 880070009600 active site 880070009601 catalytic triad [active] 880070009602 oxyanion hole [active] 880070009603 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK07107 880070009604 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 880070009605 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH_2; cd04602 880070009606 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 880070009607 active site 880070009608 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 880070009609 cyclase homology domain; Region: CHD; cd07302 880070009610 nucleotidyl binding site; other site 880070009611 metal binding site [ion binding]; metal-binding site 880070009612 dimer interface [polypeptide binding]; other site 880070009613 Predicted integral membrane protein [Function unknown]; Region: COG5616 880070009614 TPR repeat; Region: TPR_11; pfam13414 880070009615 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 880070009616 TPR motif; other site 880070009617 binding surface 880070009618 TPR repeat; Region: TPR_11; pfam13414 880070009619 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 880070009620 binding surface 880070009621 TPR motif; other site 880070009622 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 880070009623 Helix-turn-helix domain; Region: HTH_18; pfam12833 880070009624 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 880070009625 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 880070009626 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR1; cd08267 880070009627 putative NAD(P) binding site [chemical binding]; other site 880070009628 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 880070009629 Beta-lactamase; Region: Beta-lactamase; pfam00144 880070009630 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 880070009631 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_1; cd08352 880070009632 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 880070009633 putative metal binding site [ion binding]; other site 880070009634 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 880070009635 putative trimer interface [polypeptide binding]; other site 880070009636 putative CoA binding site [chemical binding]; other site 880070009637 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 880070009638 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 880070009639 ligand binding site [chemical binding]; other site 880070009640 flexible hinge region; other site 880070009641 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 880070009642 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 880070009643 bile acid transporter; Region: bass; TIGR00841 880070009644 Sodium Bile acid symporter family; Region: SBF; cl17470 880070009645 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 880070009646 Predicted kinase [General function prediction only]; Region: COG4857; cl17281 880070009647 Phosphotransferase enzyme family; Region: APH; pfam01636 880070009648 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 880070009649 FAD binding domain; Region: FAD_binding_4; pfam01565 880070009650 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 880070009651 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 880070009652 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 880070009653 DNA binding residues [nucleotide binding] 880070009654 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070009655 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070009656 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070009657 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 880070009658 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 880070009659 starch binding outer membrane protein SusD; Region: SusD; cl17845 880070009660 SusD family; Region: SusD; pfam07980 880070009661 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070009662 Sulfatase; Region: Sulfatase; pfam00884 880070009663 Sulfatase; Region: Sulfatase; cl17466 880070009664 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 880070009665 Cytochrome c; Region: Cytochrom_C; cl11414 880070009666 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 880070009667 starch binding outer membrane protein SusD; Region: SusD; cl17845 880070009668 SusD family; Region: SusD; pfam07980 880070009669 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070009670 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070009671 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070009672 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 880070009673 FecR protein; Region: FecR; pfam04773 880070009674 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 880070009675 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 880070009676 DNA binding residues [nucleotide binding] 880070009677 FecR protein; Region: FecR; pfam04773 880070009678 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 880070009679 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070009680 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070009681 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070009682 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 880070009683 starch binding outer membrane protein SusD; Region: SusD; cd08977 880070009684 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 880070009685 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 880070009686 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 880070009687 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 880070009688 putative active site [active] 880070009689 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 880070009690 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 880070009691 catalytic residue [active] 880070009692 Family description; Region: VCBS; pfam13517 880070009693 Family description; Region: VCBS; pfam13517 880070009694 Family description; Region: VCBS; pfam13517 880070009695 Family description; Region: VCBS; pfam13517 880070009696 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 880070009697 Family description; Region: VCBS; pfam13517 880070009698 Family description; Region: VCBS; pfam13517 880070009699 Family description; Region: VCBS; pfam13517 880070009700 Family description; Region: VCBS; pfam13517 880070009701 starch binding outer membrane protein SusD; Region: SusD; cl17845 880070009702 SusD family; Region: SusD; pfam07980 880070009703 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070009704 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070009705 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070009706 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 880070009707 Sulfatase; Region: Sulfatase; cl17466 880070009708 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070009709 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 880070009710 putative metal binding site [ion binding]; other site 880070009711 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 880070009712 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 880070009713 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880070009714 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 880070009715 dimer interface [polypeptide binding]; other site 880070009716 phosphorylation site [posttranslational modification] 880070009717 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 880070009718 ATP binding site [chemical binding]; other site 880070009719 Mg2+ binding site [ion binding]; other site 880070009720 G-X-G motif; other site 880070009721 Protein of unknown function (DUF445); Region: DUF445; pfam04286 880070009722 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 880070009723 putative active site [active] 880070009724 putative catalytic site [active] 880070009725 putative Mg binding site IVb [ion binding]; other site 880070009726 putative phosphate binding site [ion binding]; other site 880070009727 putative DNA binding site [nucleotide binding]; other site 880070009728 putative Mg binding site IVa [ion binding]; other site 880070009729 Catalytic domain of Streptomyces antibioticus phosphatidylinositol-specific phospholipase C1-like proteins; Region: PI-PLCc_SaPLC1_like; cd08589 880070009730 putative active site [active] 880070009731 catalytic site [active] 880070009732 putative metal binding site [ion binding]; other site 880070009733 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 880070009734 active site residue [active] 880070009735 N-terminal Early set domain associated with the catalytic domain of eukaryotic glycogen branching enzyme (also called 1,4 alpha glucan branching enzyme); Region: E_set_GBE_euk_N; cd02854 880070009736 alpha-1,4-glucan:alpha-1,4-glucan 6-glycosyltransferase; Region: branching_enzym; TIGR01515 880070009737 Alpha amylase catalytic domain found in bacterial and eukaryotic branching enzymes; Region: AmyAc_bac_euk_BE; cd11321 880070009738 active site 880070009739 catalytic site [active] 880070009740 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 880070009741 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 880070009742 TrkA-N domain; Region: TrkA_N; pfam02254 880070009743 TrkA-C domain; Region: TrkA_C; pfam02080 880070009744 TrkA-N domain; Region: TrkA_N; pfam02254 880070009745 TrkA-C domain; Region: TrkA_C; pfam02080 880070009746 Cation transport protein; Region: TrkH; cl17365 880070009747 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 880070009748 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 880070009749 AAK_NAGK-like: N-Acetyl-L-glutamate kinase (NAGK)-like . Included in this CD are the Escherichia coli and Pseudomonas aeruginosa type NAGKs which catalyze the phosphorylation of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine...; Region: AAK_NAGK-like; cd04238 880070009750 nucleotide binding site [chemical binding]; other site 880070009751 N-acetyl-L-glutamate binding site [chemical binding]; other site 880070009752 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 880070009753 acetylornithine aminotransferase; Provisional; Region: PRK02627 880070009754 inhibitor-cofactor binding pocket; inhibition site 880070009755 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880070009756 catalytic residue [active] 880070009757 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 880070009758 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 880070009759 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 880070009760 heterotetramer interface [polypeptide binding]; other site 880070009761 active site pocket [active] 880070009762 cleavage site 880070009763 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 880070009764 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 880070009765 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 880070009766 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 880070009767 dimer interface [polypeptide binding]; other site 880070009768 active site 880070009769 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 880070009770 catalytic residues [active] 880070009771 substrate binding site [chemical binding]; other site 880070009772 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880070009773 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 880070009774 dimer interface [polypeptide binding]; other site 880070009775 phosphorylation site [posttranslational modification] 880070009776 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 880070009777 ATP binding site [chemical binding]; other site 880070009778 Mg2+ binding site [ion binding]; other site 880070009779 G-X-G motif; other site 880070009780 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 880070009781 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070009782 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070009783 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070009784 starch binding outer membrane protein SusD; Region: SusD; cl17845 880070009785 SusD family; Region: SusD; pfam07980 880070009786 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 880070009787 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_2; cd09618 880070009788 putative ligand binding site [chemical binding]; other site 880070009789 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 880070009790 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 880070009791 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 880070009792 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 880070009793 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 880070009794 NAD(P) binding site [chemical binding]; other site 880070009795 catalytic residues [active] 880070009796 Protein of unknown function (DUF779); Region: DUF779; pfam05610 880070009797 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 880070009798 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 880070009799 active site 880070009800 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 880070009801 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 880070009802 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 880070009803 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 880070009804 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 880070009805 Strictosidine synthase; Region: Str_synth; pfam03088 880070009806 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 880070009807 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 880070009808 active site pocket [active] 880070009809 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070009810 Sulfatase; Region: Sulfatase; pfam00884 880070009811 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070009812 Sulfatase; Region: Sulfatase; pfam00884 880070009813 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 880070009814 TrkA-C domain; Region: TrkA_C; pfam02080 880070009815 TrkA-C domain; Region: TrkA_C; pfam02080 880070009816 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 880070009817 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 880070009818 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 880070009819 acyl-coenzyme A oxidase; Region: PLN02636 880070009820 active site 880070009821 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 880070009822 amino acid carrier protein; Region: agcS; TIGR00835 880070009823 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 880070009824 S1 domain; Region: S1_2; pfam13509 880070009825 S1 domain; Region: S1_2; pfam13509 880070009826 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 880070009827 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 880070009828 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 880070009829 nucleotide binding site [chemical binding]; other site 880070009830 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 880070009831 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 880070009832 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 880070009833 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 880070009834 HlyD family secretion protein; Region: HlyD_3; pfam13437 880070009835 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 880070009836 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 880070009837 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070009838 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 880070009839 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 880070009840 Histidine kinase; Region: His_kinase; pfam06580 880070009841 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 880070009842 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 880070009843 active site 880070009844 phosphorylation site [posttranslational modification] 880070009845 intermolecular recognition site; other site 880070009846 dimerization interface [polypeptide binding]; other site 880070009847 LytTr DNA-binding domain; Region: LytTR; smart00850 880070009848 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 880070009849 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 880070009850 Sulfate transporter family; Region: Sulfate_transp; pfam00916 880070009851 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; cl00391 880070009852 active site clefts [active] 880070009853 zinc binding site [ion binding]; other site 880070009854 dimer interface [polypeptide binding]; other site 880070009855 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 880070009856 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 880070009857 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 880070009858 Cl- selectivity filter; other site 880070009859 Cl- binding residues [ion binding]; other site 880070009860 pore gating glutamate residue; other site 880070009861 dimer interface [polypeptide binding]; other site 880070009862 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 880070009863 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 880070009864 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 880070009865 dimer interface [polypeptide binding]; other site 880070009866 decamer (pentamer of dimers) interface [polypeptide binding]; other site 880070009867 catalytic triad [active] 880070009868 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 880070009869 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 880070009870 dimer interface [polypeptide binding]; other site 880070009871 active site 880070009872 CoA binding pocket [chemical binding]; other site 880070009873 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 880070009874 Amidohydrolase; Region: Amidohydro_2; pfam04909 880070009875 Domain of unknown function (DUF718); Region: DUF718; pfam05336 880070009876 Receptor L domain; Region: Recep_L_domain; pfam01030 880070009877 Methyltransferase domain; Region: Methyltransf_18; pfam12847 880070009878 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 880070009879 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 880070009880 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 880070009881 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 880070009882 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 880070009883 ligand binding site [chemical binding]; other site 880070009884 homodimer interface [polypeptide binding]; other site 880070009885 NAD(P) binding site [chemical binding]; other site 880070009886 trimer interface B [polypeptide binding]; other site 880070009887 trimer interface A [polypeptide binding]; other site 880070009888 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 880070009889 cinnamyl-alcohol dehydrogenase family protein; Region: PLN02662 880070009890 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880070009891 NAD(P) binding site [chemical binding]; other site 880070009892 active site 880070009893 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 880070009894 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880070009895 NAD(P) binding site [chemical binding]; other site 880070009896 active site 880070009897 Helix-turn-helix domain; Region: HTH_18; pfam12833 880070009898 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 880070009899 Domain of unknown function (DUF4260); Region: DUF4260; pfam14079 880070009900 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 880070009901 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 880070009902 ligand binding site [chemical binding]; other site 880070009903 flexible hinge region; other site 880070009904 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 880070009905 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 880070009906 Predicted transcriptional regulator [Transcription]; Region: COG2378 880070009907 HTH domain; Region: HTH_11; pfam08279 880070009908 WYL domain; Region: WYL; pfam13280 880070009909 Predicted metalloprotease [General function prediction only]; Region: COG2321 880070009910 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 880070009911 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070009912 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 880070009913 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 880070009914 N-terminal plug; other site 880070009915 ligand-binding site [chemical binding]; other site 880070009916 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 880070009917 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 880070009918 S-adenosylmethionine binding site [chemical binding]; other site 880070009919 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 880070009920 Peptidyl-tRNA hydrolase, type 2 (PTH2)_like . Peptidyl-tRNA hydrolase activity releases tRNA from the premature translation termination product peptidyl-tRNA. Two structurally different enzymes have been reported to encode such activity, Pth present in...; Region: PTH2_family; cl00869 880070009921 dimer interface [polypeptide binding]; other site 880070009922 putative active site [active] 880070009923 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 880070009924 BNR repeat-like domain; Region: BNR_2; pfam13088 880070009925 Right handed beta helix region; Region: Beta_helix; pfam13229 880070009926 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 880070009927 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 880070009928 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880070009929 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; cl01267 880070009930 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 880070009931 GIY-YIG motif/motif A; other site 880070009932 putative active site [active] 880070009933 putative metal binding site [ion binding]; other site 880070009934 A domain in the BMP inhibitor chordin and in microbial proteins; Region: CHRD; smart00754 880070009935 CHRD domain; Region: CHRD; pfam07452 880070009936 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 880070009937 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 880070009938 Phage tail sheath protein FI [General function prediction only]; Region: COG3497 880070009939 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 880070009940 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 880070009941 YHYH protein; Region: YHYH; pfam14240 880070009942 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070009943 Sulfatase; Region: Sulfatase; pfam00884 880070009944 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 880070009945 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 880070009946 TPR motif; other site 880070009947 TPR repeat; Region: TPR_11; pfam13414 880070009948 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 880070009949 dimer interface [polypeptide binding]; other site 880070009950 FMN binding site [chemical binding]; other site 880070009951 Predicted transcriptional regulators [Transcription]; Region: COG1733 880070009952 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 880070009953 dimerization interface [polypeptide binding]; other site 880070009954 putative Zn2+ binding site [ion binding]; other site 880070009955 putative DNA binding site [nucleotide binding]; other site 880070009956 DinB superfamily; Region: DinB_2; pfam12867 880070009957 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 880070009958 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 880070009959 ligand binding site [chemical binding]; other site 880070009960 flexible hinge region; other site 880070009961 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 880070009962 active site 880070009963 8-oxo-dGMP binding site [chemical binding]; other site 880070009964 nudix motif; other site 880070009965 metal binding site [ion binding]; metal-binding site 880070009966 Uncharacterized conserved protein [Function unknown]; Region: COG3391 880070009967 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 880070009968 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 880070009969 ligand binding site [chemical binding]; other site 880070009970 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 880070009971 dimerization interface [polypeptide binding]; other site 880070009972 putative DNA binding site [nucleotide binding]; other site 880070009973 putative Zn2+ binding site [ion binding]; other site 880070009974 Predicted permease; Region: DUF318; cl17795 880070009975 Predicted permease; Region: DUF318; cl17795 880070009976 Domain of unknown function DUF21; Region: DUF21; pfam01595 880070009977 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 880070009978 ATP-dependent helicase HepA; Validated; Region: PRK04914 880070009979 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 880070009980 ATP binding site [chemical binding]; other site 880070009981 putative Mg++ binding site [ion binding]; other site 880070009982 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 880070009983 nucleotide binding region [chemical binding]; other site 880070009984 ATP-binding site [chemical binding]; other site 880070009985 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 880070009986 DHH family; Region: DHH; pfam01368 880070009987 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 880070009988 dimer interface [polypeptide binding]; other site 880070009989 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 880070009990 phosphorylation site [posttranslational modification] 880070009991 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 880070009992 ATP binding site [chemical binding]; other site 880070009993 Mg2+ binding site [ion binding]; other site 880070009994 G-X-G motif; other site 880070009995 ATP-dependent DNA ligase; Validated; Region: PRK09247 880070009996 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 880070009997 active site 880070009998 DNA binding site [nucleotide binding] 880070009999 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 880070010000 DNA binding site [nucleotide binding] 880070010001 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 880070010002 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 880070010003 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 880070010004 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 880070010005 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 880070010006 Predicted transcriptional regulators [Transcription]; Region: COG1733 880070010007 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 880070010008 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 880070010009 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 880070010010 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 880070010011 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 880070010012 putative active site; other site 880070010013 catalytic triad [active] 880070010014 putative dimer interface [polypeptide binding]; other site 880070010015 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 880070010016 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 880070010017 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 880070010018 Pectic acid lyase; Region: Pec_lyase; pfam09492 880070010019 Bacteroidetes-specific putative membrane protein; Region: Bac_Flav_fam_1; TIGR03519 880070010020 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 880070010021 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 880070010022 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 880070010023 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 880070010024 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 880070010025 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 880070010026 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 880070010027 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 880070010028 C-terminal domain of CHU protein family; Region: CHU_C; cl17875 880070010029 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 880070010030 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 880070010031 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 880070010032 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 880070010033 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 880070010034 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 880070010035 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 880070010036 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 880070010037 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 880070010038 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 880070010039 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 880070010040 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 880070010041 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 880070010042 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 880070010043 active site 880070010044 catalytic residues [active] 880070010045 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 880070010046 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 880070010047 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for...; Region: KGPDC_HPS; cd04726 880070010048 active site 880070010049 dimer interface [polypeptide binding]; other site 880070010050 magnesium binding site [ion binding]; other site 880070010051 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 880070010052 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH4; cd08258 880070010053 putative NAD(P) binding site [chemical binding]; other site 880070010054 catalytic Zn binding site [ion binding]; other site 880070010055 structural Zn binding site [ion binding]; other site 880070010056 short chain dehydrogenase; Provisional; Region: PRK06198 880070010057 classical (c) SDRs; Region: SDR_c; cd05233 880070010058 NAD(P) binding site [chemical binding]; other site 880070010059 active site 880070010060 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 880070010061 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 880070010062 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 880070010063 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 880070010064 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 880070010065 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 880070010066 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 880070010067 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 880070010068 HEAT repeats; Region: HEAT_2; pfam13646 880070010069 HEAT repeats; Region: HEAT_2; pfam13646 880070010070 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 880070010071 Cytochrome c; Region: Cytochrom_C; pfam00034 880070010072 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 880070010073 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 880070010074 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 880070010075 3-hydroxybutyryl-CoA dehydrogenase; Region: PLN02545 880070010076 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 880070010077 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 880070010078 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 880070010079 active site 880070010080 dinuclear metal binding site [ion binding]; other site 880070010081 dimerization interface [polypeptide binding]; other site 880070010082 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 880070010083 active site 880070010084 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 880070010085 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 880070010086 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 880070010087 glutaminase active site [active] 880070010088 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 880070010089 dimer interface [polypeptide binding]; other site 880070010090 active site 880070010091 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 880070010092 dimer interface [polypeptide binding]; other site 880070010093 active site 880070010094 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070010095 Sulfatase; Region: Sulfatase; pfam00884 880070010096 SGNH_hydrolase subfamily. SGNH hydrolases are 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...; Region: SGNH_hydrolase_like_6; cd01844 880070010097 active site 880070010098 catalytic triad [active] 880070010099 oxyanion hole [active] 880070010100 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4299 880070010101 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 880070010102 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 880070010103 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 880070010104 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880070010105 Walker A/P-loop; other site 880070010106 ATP binding site [chemical binding]; other site 880070010107 Q-loop/lid; other site 880070010108 ABC transporter signature motif; other site 880070010109 Walker B; other site 880070010110 D-loop; other site 880070010111 H-loop/switch region; other site 880070010112 ABC transporter; Region: ABC_tran_2; pfam12848 880070010113 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 880070010114 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 880070010115 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 880070010116 putative substrate translocation pore; other site 880070010117 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 880070010118 Kelch motif; Region: Kelch_1; pfam01344 880070010119 Kelch motif; Region: Kelch_1; pfam01344 880070010120 Kelch motif; Region: Kelch_1; pfam01344 880070010121 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 880070010122 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 880070010123 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 880070010124 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 880070010125 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 880070010126 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 880070010127 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 880070010128 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880070010129 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 880070010130 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 880070010131 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 880070010132 RibD C-terminal domain; Region: RibD_C; cl17279 880070010133 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 880070010134 Beta protein; Region: Beta_protein; pfam14350 880070010135 RES domain; Region: RES; smart00953 880070010136 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 880070010137 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 880070010138 von Willebrand factor type A domain; Region: VWA_2; pfam13519 880070010139 metal ion-dependent adhesion site (MIDAS); other site 880070010140 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 880070010141 HEAT repeats; Region: HEAT_2; pfam13646 880070010142 HEAT repeats; Region: HEAT_2; pfam13646 880070010143 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 880070010144 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 880070010145 SGNH_hydrolase subfamily. SGNH hydrolases are 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...; Region: SGNH_hydrolase_like_2; cd01834 880070010146 active site 880070010147 catalytic triad [active] 880070010148 oxyanion hole [active] 880070010149 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 880070010150 Methyltransferase domain; Region: Methyltransf_31; pfam13847 880070010151 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 880070010152 S-adenosylmethionine binding site [chemical binding]; other site 880070010153 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 880070010154 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 880070010155 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 880070010156 active site 880070010157 intersubunit interface [polypeptide binding]; other site 880070010158 catalytic residue [active] 880070010159 Domain of unknown function (DUF386); Region: DUF386; cl01047 880070010160 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 880070010161 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 880070010162 substrate binding site [chemical binding]; other site 880070010163 ATP binding site [chemical binding]; other site 880070010164 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 880070010165 putative active site [active] 880070010166 putative metal binding site [ion binding]; other site 880070010167 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 880070010168 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 880070010169 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 880070010170 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 880070010171 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880070010172 NAD(P) binding site [chemical binding]; other site 880070010173 active site 880070010174 short chain dehydrogenase; Provisional; Region: PRK06197 880070010175 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 880070010176 putative NAD(P) binding site [chemical binding]; other site 880070010177 active site 880070010178 Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]; Region: Fur; COG0735 880070010179 metal binding site 2 [ion binding]; metal-binding site 880070010180 putative DNA binding helix; other site 880070010181 metal binding site 1 [ion binding]; metal-binding site 880070010182 dimer interface [polypeptide binding]; other site 880070010183 structural Zn2+ binding site [ion binding]; other site 880070010184 PPOX class probable FMN-dependent enzyme, DR_2398 family; Region: PPOX_FMN_DR2398; TIGR04025 880070010185 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 880070010186 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 880070010187 active site 880070010188 metal binding site [ion binding]; metal-binding site 880070010189 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 880070010190 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 880070010191 Cytochrome c; Region: Cytochrom_C; pfam00034 880070010192 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 880070010193 sugar binding site [chemical binding]; other site 880070010194 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 880070010195 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 880070010196 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 880070010197 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 880070010198 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 880070010199 NAD(P) binding site [chemical binding]; other site 880070010200 2-deoxy-D-gluconate 3-dehydrogenase; Region: kduD; TIGR01832 880070010201 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 880070010202 NADP binding site [chemical binding]; other site 880070010203 homodimer interface [polypeptide binding]; other site 880070010204 active site 880070010205 Predicted integral membrane protein [Function unknown]; Region: COG5616 880070010206 TPR repeat; Region: TPR_11; pfam13414 880070010207 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 880070010208 TPR motif; other site 880070010209 binding surface 880070010210 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 880070010211 TPR motif; other site 880070010212 TPR repeat; Region: TPR_11; pfam13414 880070010213 binding surface 880070010214 Helix-turn-helix domain; Region: HTH_18; pfam12833 880070010215 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 880070010216 active site 880070010217 NTP binding site [chemical binding]; other site 880070010218 metal binding triad [ion binding]; metal-binding site 880070010219 antibiotic binding site [chemical binding]; other site 880070010220 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 880070010221 active site 880070010222 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 880070010223 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 880070010224 NAD binding site [chemical binding]; other site 880070010225 catalytic Zn binding site [ion binding]; other site 880070010226 substrate binding site [chemical binding]; other site 880070010227 structural Zn binding site [ion binding]; other site 880070010228 Putative esterase; Region: Esterase; pfam00756 880070010229 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4947 880070010230 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 880070010231 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; pfam09907 880070010232 AZL_007920/MXAN_0976 family protein; Region: AZL_007920_fam; TIGR04052 880070010233 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 880070010234 Helix-turn-helix domain; Region: HTH_18; pfam12833 880070010235 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 880070010236 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 880070010237 XdhC Rossmann domain; Region: XdhC_C; pfam13478 880070010238 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 880070010239 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 880070010240 dimer interface [polypeptide binding]; other site 880070010241 putative functional site; other site 880070010242 putative MPT binding site; other site 880070010243 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 880070010244 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 880070010245 FeS/SAM binding site; other site 880070010246 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 880070010247 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 880070010248 MoaE homodimer interface [polypeptide binding]; other site 880070010249 MoaD interaction [polypeptide binding]; other site 880070010250 active site residues [active] 880070010251 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 880070010252 MoaE interaction surface [polypeptide binding]; other site 880070010253 MoeB interaction surface [polypeptide binding]; other site 880070010254 thiocarboxylated glycine; other site 880070010255 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 880070010256 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880070010257 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 880070010258 DNA binding residues [nucleotide binding] 880070010259 FecR protein; Region: FecR; pfam04773 880070010260 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070010261 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070010262 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070010263 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 880070010264 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 880070010265 starch binding outer membrane protein SusD; Region: SusD; cl17845 880070010266 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 880070010267 GntP family permease; Region: GntP_permease; pfam02447 880070010268 fructuronate transporter; Provisional; Region: PRK10034; cl15264 880070010269 D-mannonate dehydratase [Carbohydrate transport and metabolism]; Region: UxuA; COG1312 880070010270 mannonate dehydratase; Region: uxuA; TIGR00695 880070010271 tartronate semialdehyde reductase; Provisional; Region: garR; PRK11559 880070010272 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 880070010273 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 880070010274 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 880070010275 metal binding site [ion binding]; metal-binding site 880070010276 substrate binding pocket [chemical binding]; other site 880070010277 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 880070010278 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 880070010279 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 880070010280 active site pocket [active] 880070010281 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 880070010282 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 880070010283 active site pocket [active] 880070010284 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 880070010285 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 880070010286 GAF domain; Region: GAF; pfam01590 880070010287 PAS domain; Region: PAS_9; pfam13426 880070010288 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 880070010289 PAS domain; Region: PAS_9; pfam13426 880070010290 putative active site [active] 880070010291 heme pocket [chemical binding]; other site 880070010292 PAS fold; Region: PAS_4; pfam08448 880070010293 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 880070010294 PAS fold; Region: PAS_3; pfam08447 880070010295 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 880070010296 putative active site [active] 880070010297 heme pocket [chemical binding]; other site 880070010298 PAS domain; Region: PAS; smart00091 880070010299 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 880070010300 putative active site [active] 880070010301 heme pocket [chemical binding]; other site 880070010302 chaperone protein DnaJ; Provisional; Region: PRK14299 880070010303 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 880070010304 HSP70 interaction site [polypeptide binding]; other site 880070010305 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 880070010306 substrate binding site [polypeptide binding]; other site 880070010307 dimer interface [polypeptide binding]; other site 880070010308 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 880070010309 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 880070010310 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 880070010311 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 880070010312 ATP binding site [chemical binding]; other site 880070010313 Mg2+ binding site [ion binding]; other site 880070010314 G-X-G motif; other site 880070010315 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 880070010316 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 880070010317 active site 880070010318 phosphorylation site [posttranslational modification] 880070010319 intermolecular recognition site; other site 880070010320 dimerization interface [polypeptide binding]; other site 880070010321 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 880070010322 Walker A motif; other site 880070010323 ATP binding site [chemical binding]; other site 880070010324 Walker B motif; other site 880070010325 arginine finger; other site 880070010326 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 880070010327 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 880070010328 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 880070010329 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 880070010330 HlyD family secretion protein; Region: HlyD_3; pfam13437 880070010331 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 880070010332 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 880070010333 Walker A/P-loop; other site 880070010334 ATP binding site [chemical binding]; other site 880070010335 Q-loop/lid; other site 880070010336 ABC transporter signature motif; other site 880070010337 Walker B; other site 880070010338 D-loop; other site 880070010339 H-loop/switch region; other site 880070010340 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 880070010341 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 880070010342 FtsX-like permease family; Region: FtsX; pfam02687 880070010343 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 880070010344 FtsX-like permease family; Region: FtsX; pfam02687 880070010345 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 880070010346 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 880070010347 FtsX-like permease family; Region: FtsX; pfam02687 880070010348 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 880070010349 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 880070010350 FtsX-like permease family; Region: FtsX; pfam02687 880070010351 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 880070010352 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 880070010353 FtsX-like permease family; Region: FtsX; pfam02687 880070010354 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 880070010355 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 880070010356 FtsX-like permease family; Region: FtsX; pfam02687 880070010357 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 880070010358 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 880070010359 FtsX-like permease family; Region: FtsX; pfam02687 880070010360 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 880070010361 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 880070010362 FtsX-like permease family; Region: FtsX; pfam02687 880070010363 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 880070010364 FtsX-like permease family; Region: FtsX; pfam02687 880070010365 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 880070010366 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 880070010367 Walker A/P-loop; other site 880070010368 ATP binding site [chemical binding]; other site 880070010369 Q-loop/lid; other site 880070010370 ABC transporter signature motif; other site 880070010371 Walker B; other site 880070010372 D-loop; other site 880070010373 H-loop/switch region; other site 880070010374 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 880070010375 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 880070010376 Sulfate transporter family; Region: Sulfate_transp; pfam00916 880070010377 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 880070010378 active site clefts [active] 880070010379 zinc binding site [ion binding]; other site 880070010380 dimer interface [polypeptide binding]; other site 880070010381 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cl17698 880070010382 BNR repeat-like domain; Region: BNR_2; pfam13088 880070010383 Asp-box motif; other site 880070010384 Right handed beta helix region; Region: Beta_helix; pfam13229 880070010385 Right handed beta helix region; Region: Beta_helix; pfam13229 880070010386 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 880070010387 protein binding site [polypeptide binding]; other site 880070010388 FOG: WD40-like repeat [Function unknown]; Region: COG1520 880070010389 starch binding outer membrane protein SusD; Region: SusD; cl17845 880070010390 starch binding outer membrane protein SusD; Region: SusD; cl17845 880070010391 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070010392 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070010393 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 880070010394 starch binding outer membrane protein SusD; Region: SusD; cl17845 880070010395 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070010396 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070010397 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 880070010398 Glycosyl hydrolase 43-like family consists of hypothetical proteins; Region: GH43_like_2; cd08994 880070010399 active site 880070010400 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880070010401 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 880070010402 dimer interface [polypeptide binding]; other site 880070010403 phosphorylation site [posttranslational modification] 880070010404 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 880070010405 ATP binding site [chemical binding]; other site 880070010406 Mg2+ binding site [ion binding]; other site 880070010407 G-X-G motif; other site 880070010408 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 880070010409 active site 880070010410 catalytic triad [active] 880070010411 oxyanion hole [active] 880070010412 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 880070010413 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 880070010414 PA/protease or protease-like domain interface [polypeptide binding]; other site 880070010415 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 880070010416 Peptidase family M28; Region: Peptidase_M28; pfam04389 880070010417 metal binding site [ion binding]; metal-binding site 880070010418 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 880070010419 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 880070010420 active site 880070010421 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 880070010422 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 880070010423 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 880070010424 ATP-binding site [chemical binding]; other site 880070010425 Gluconate-6-phosphate binding site [chemical binding]; other site 880070010426 Shikimate kinase; Region: SKI; pfam01202 880070010427 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 880070010428 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 880070010429 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 880070010430 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 880070010431 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 880070010432 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 880070010433 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070010434 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 880070010435 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 880070010436 N-terminal plug; other site 880070010437 ligand-binding site [chemical binding]; other site 880070010438 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; cl17220 880070010439 putative DNA binding site [nucleotide binding]; other site 880070010440 putative Zn2+ binding site [ion binding]; other site 880070010441 Outer membrane efflux protein; Region: OEP; pfam02321 880070010442 Outer membrane efflux protein; Region: OEP; pfam02321 880070010443 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 880070010444 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 880070010445 HlyD family secretion protein; Region: HlyD_3; pfam13437 880070010446 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 880070010447 starch binding outer membrane protein SusD; Region: SusD; cd08977 880070010448 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 880070010449 SusD family; Region: SusD; pfam07980 880070010450 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070010451 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070010452 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 880070010453 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 880070010454 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070010455 Sulfatase; Region: Sulfatase; pfam00884 880070010456 Glycosaminoglycan (GAG) polysaccharide lyase family. This family consists of a group of secreted bacterial lyase enzymes capable of acting on glycosaminoglycans, such as hyaluronan and chondroitin, in the extracellular matrix of host tissues; Region: GAG_Lyase; cl17706 880070010457 substrate binding site [chemical binding]; other site 880070010458 catalytic residues [active] 880070010459 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 880070010460 Domain of unknown function DUF20; Region: UPF0118; pfam01594 880070010461 Beta-lactamase; Region: Beta-lactamase; pfam00144 880070010462 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 880070010463 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 880070010464 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 880070010465 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 880070010466 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 880070010467 Walker A/P-loop; other site 880070010468 ATP binding site [chemical binding]; other site 880070010469 Q-loop/lid; other site 880070010470 ABC transporter signature motif; other site 880070010471 Walker B; other site 880070010472 D-loop; other site 880070010473 H-loop/switch region; other site 880070010474 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 880070010475 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 880070010476 FtsX-like permease family; Region: FtsX; pfam02687 880070010477 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 880070010478 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 880070010479 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 880070010480 FtsX-like permease family; Region: FtsX; pfam02687 880070010481 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 880070010482 Histidine kinase; Region: HisKA_3; pfam07730 880070010483 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 880070010484 ATP binding site [chemical binding]; other site 880070010485 Mg2+ binding site [ion binding]; other site 880070010486 G-X-G motif; other site 880070010487 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 880070010488 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 880070010489 active site 880070010490 phosphorylation site [posttranslational modification] 880070010491 intermolecular recognition site; other site 880070010492 dimerization interface [polypeptide binding]; other site 880070010493 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 880070010494 DNA binding residues [nucleotide binding] 880070010495 dimerization interface [polypeptide binding]; other site 880070010496 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; cl00248 880070010497 substrate binding site [chemical binding]; other site 880070010498 dimerization interface [polypeptide binding]; other site 880070010499 active site 880070010500 calcium binding site [ion binding]; other site 880070010501 Outer membrane efflux protein; Region: OEP; pfam02321 880070010502 Outer membrane efflux protein; Region: OEP; pfam02321 880070010503 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 880070010504 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 880070010505 HlyD family secretion protein; Region: HlyD_3; pfam13437 880070010506 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 880070010507 Protein export membrane protein; Region: SecD_SecF; cl14618 880070010508 CotH protein; Region: CotH; pfam08757 880070010509 MarC family integral membrane protein; Region: MarC; pfam01914 880070010510 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 880070010511 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 880070010512 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 880070010513 HlyD family secretion protein; Region: HlyD_3; pfam13437 880070010514 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 880070010515 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 880070010516 Walker A/P-loop; other site 880070010517 ATP binding site [chemical binding]; other site 880070010518 Q-loop/lid; other site 880070010519 ABC transporter signature motif; other site 880070010520 Walker B; other site 880070010521 D-loop; other site 880070010522 H-loop/switch region; other site 880070010523 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 880070010524 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 880070010525 FtsX-like permease family; Region: FtsX; pfam02687 880070010526 Histidine kinase; Region: His_kinase; pfam06580 880070010527 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 880070010528 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 880070010529 active site 880070010530 phosphorylation site [posttranslational modification] 880070010531 intermolecular recognition site; other site 880070010532 dimerization interface [polypeptide binding]; other site 880070010533 LytTr DNA-binding domain; Region: LytTR; smart00850 880070010534 Amidohydrolase; Region: Amidohydro_2; pfam04909 880070010535 Protein of unknown function (DUF2911); Region: DUF2911; pfam11138 880070010536 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 880070010537 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 880070010538 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 880070010539 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070010540 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 880070010541 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 880070010542 Bacterial proteins similar to Porphyromonas gingivalis HmuY and the C-terminal domain of PARMER_03218; Region: HmuY_like; cl12009 880070010543 Bacterial proteins similar to Porphyromonas gingivalis HmuY; Region: HmuY; cd12105 880070010544 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 880070010545 CobN/Magnesium Chelatase; Region: CobN-Mg_chel; pfam02514 880070010546 CobN/Magnesium Chelatase; Region: CobN-Mg_chel; pfam02514 880070010547 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 880070010548 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 880070010549 Uncharacterized conserved protein (DUF2149); Region: DUF2149; pfam09919 880070010550 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 880070010551 Trp docking motif [polypeptide binding]; other site 880070010552 putative active site [active] 880070010553 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 880070010554 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 880070010555 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 880070010556 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 880070010557 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 880070010558 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 880070010559 Ecdysteroid kinase; Region: EcKinase; cl17738 880070010560 Phosphotransferase enzyme family; Region: APH; pfam01636 880070010561 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 880070010562 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 880070010563 active site 880070010564 HlyD family secretion protein; Region: HlyD_3; pfam13437 880070010565 Lamin Tail Domain; Region: LTD; pfam00932 880070010566 Lamin Tail Domain; Region: LTD; pfam00932 880070010567 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 880070010568 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 880070010569 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 880070010570 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 880070010571 Beta-lactamase; Region: Beta-lactamase; pfam00144 880070010572 Beta-lactamase; Region: Beta-lactamase; pfam00144 880070010573 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 880070010574 CAAX protease self-immunity; Region: Abi; pfam02517 880070010575 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 880070010576 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 880070010577 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 880070010578 Cytokine receptor motif; other site 880070010579 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 880070010580 active site 880070010581 metal binding site [ion binding]; metal-binding site 880070010582 Histidine kinase; Region: His_kinase; pfam06580 880070010583 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 880070010584 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 880070010585 active site 880070010586 phosphorylation site [posttranslational modification] 880070010587 intermolecular recognition site; other site 880070010588 dimerization interface [polypeptide binding]; other site 880070010589 LytTr DNA-binding domain; Region: LytTR; smart00850 880070010590 SGNH_hydrolase subfamily. SGNH hydrolases are 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...; Region: SGNH_hydrolase_like_2; cd01834 880070010591 active site 880070010592 catalytic triad [active] 880070010593 oxyanion hole [active] 880070010594 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 880070010595 HEAT repeats; Region: HEAT_2; pfam13646 880070010596 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 880070010597 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 880070010598 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 880070010599 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 880070010600 transmembrane helices; other site 880070010601 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 880070010602 binding surface 880070010603 TPR motif; other site 880070010604 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 880070010605 TPR motif; other site 880070010606 binding surface 880070010607 DNA gyrase subunit A; Validated; Region: PRK05560 880070010608 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 880070010609 CAP-like domain; other site 880070010610 active site 880070010611 primary dimer interface [polypeptide binding]; other site 880070010612 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 880070010613 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 880070010614 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 880070010615 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 880070010616 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 880070010617 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 880070010618 substrate binding site [chemical binding]; other site 880070010619 hexamer interface [polypeptide binding]; other site 880070010620 metal binding site [ion binding]; metal-binding site 880070010621 Peptidase S8 family domain, uncharacterized subfamily 9; Region: Peptidases_S8_9; cd07493 880070010622 active site 880070010623 catalytic triad [active] 880070010624 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880070010625 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 880070010626 phosphate binding site [ion binding]; other site 880070010627 Putative methyltransferase; Region: Methyltransf_4; cl17290 880070010628 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 880070010629 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 880070010630 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 880070010631 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 880070010632 Sporulation related domain; Region: SPOR; pfam05036 880070010633 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 880070010634 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 880070010635 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 880070010636 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 880070010637 binding surface 880070010638 TPR motif; other site 880070010639 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 880070010640 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 880070010641 binding surface 880070010642 TPR motif; other site 880070010643 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 880070010644 binding surface 880070010645 Outer membrane lipoprotein; Region: YfiO; pfam13525 880070010646 TPR motif; other site 880070010647 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 880070010648 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 880070010649 DNA polymerase III, delta subunit; Region: holA; TIGR01128 880070010650 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 880070010651 TPR motif; other site 880070010652 Tetratricopeptide repeat; Region: TPR_16; pfam13432 880070010653 binding surface 880070010654 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 880070010655 TPR motif; other site 880070010656 TPR repeat; Region: TPR_11; pfam13414 880070010657 binding surface 880070010658 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 880070010659 Ligand Binding Site [chemical binding]; other site 880070010660 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 880070010661 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 880070010662 putative ligand binding site [chemical binding]; other site 880070010663 NAD binding site [chemical binding]; other site 880070010664 dimerization interface [polypeptide binding]; other site 880070010665 catalytic site [active] 880070010666 Protein of unknown function (DUF2911); Region: DUF2911; pfam11138 880070010667 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u2; cd11494 880070010668 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 880070010669 Na binding site [ion binding]; other site 880070010670 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 880070010671 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 880070010672 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_2; cd09618 880070010673 putative ligand binding site [chemical binding]; other site 880070010674 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 880070010675 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 880070010676 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 880070010677 Predicted dehydrogenase [General function prediction only]; Region: COG0579 880070010678 hydroxyglutarate oxidase; Provisional; Region: PRK11728 880070010679 flavoprotein, HI0933 family; Region: TIGR00275 880070010680 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 880070010681 Zonular occludens toxin (Zot); Region: Zot; cl17485 880070010682 Domain of unknown function (DUF4332); Region: DUF4332; pfam14229 880070010683 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 880070010684 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 880070010685 Zn binding sites [ion binding]; other site 880070010686 DnaJ central domain; Region: DnaJ_CXXCXGXG; pfam00684 880070010687 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 880070010688 binding surface 880070010689 Tetratricopeptide repeat; Region: TPR_16; pfam13432 880070010690 TPR motif; other site 880070010691 TPR repeat; Region: TPR_11; pfam13414 880070010692 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 880070010693 binding surface 880070010694 TPR motif; other site 880070010695 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 880070010696 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 880070010697 trimer interface [polypeptide binding]; other site 880070010698 active site 880070010699 substrate binding site [chemical binding]; other site 880070010700 CoA binding site [chemical binding]; other site 880070010701 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 880070010702 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 880070010703 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 880070010704 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 880070010705 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 880070010706 FeoA domain; Region: FeoA; pfam04023 880070010707 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 880070010708 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 880070010709 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 880070010710 trmE is a tRNA modification GTPase; Region: trmE; cd04164 880070010711 G1 box; other site 880070010712 GTP/Mg2+ binding site [chemical binding]; other site 880070010713 Switch I region; other site 880070010714 G2 box; other site 880070010715 Switch II region; other site 880070010716 G3 box; other site 880070010717 G4 box; other site 880070010718 G5 box; other site 880070010719 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 880070010720 Helix-turn-helix domain; Region: HTH_17; cl17695 880070010721 Protein of unknown function (DUF3946); Region: DUF3946; pfam13102 880070010722 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 880070010723 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 880070010724 Int/Topo IB signature motif; other site 880070010725 Helix-turn-helix domain; Region: HTH_17; pfam12728 880070010726 Helix-turn-helix domain; Region: HTH_17; pfam12728 880070010727 VirE N-terminal domain; Region: VirE_N; pfam08800 880070010728 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 880070010729 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 880070010730 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 880070010731 non-specific DNA binding site [nucleotide binding]; other site 880070010732 salt bridge; other site 880070010733 sequence-specific DNA binding site [nucleotide binding]; other site 880070010734 Piwi-like: PIWI domain. Domain found in proteins involved in RNA silencing. RNA silencing refers to a group of related gene-silencing mechanisms mediated by short RNA molecules, including siRNAs, miRNAs, and heterochromatin-related guide RNAs. The...; Region: Piwi-like; cl00628 880070010735 5' RNA guide strand anchoring site; other site 880070010736 active site 880070010737 Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]; Region: Fur; COG0735 880070010738 metal binding site 2 [ion binding]; metal-binding site 880070010739 putative DNA binding helix; other site 880070010740 metal binding site 1 [ion binding]; metal-binding site 880070010741 dimer interface [polypeptide binding]; other site 880070010742 structural Zn2+ binding site [ion binding]; other site 880070010743 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 880070010744 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 880070010745 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 880070010746 HlyD family secretion protein; Region: HlyD_3; pfam13437 880070010747 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 880070010748 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 880070010749 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 880070010750 Helix-turn-helix domain; Region: HTH_18; pfam12833 880070010751 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 880070010752 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 880070010753 metal-binding site [ion binding] 880070010754 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 880070010755 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 880070010756 Outer membrane efflux protein; Region: OEP; pfam02321 880070010757 Outer membrane efflux protein; Region: OEP; pfam02321 880070010758 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 880070010759 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 880070010760 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 880070010761 motif II; other site 880070010762 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 880070010763 HlyD family secretion protein; Region: HlyD_3; pfam13437 880070010764 Protein of unknown function (DUF3347); Region: DUF3347; pfam11827 880070010765 Protein of unknown function (DUF3347); Region: DUF3347; pfam11827 880070010766 Haem-binding domain; Region: Haem_bd; pfam14376 880070010767 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 880070010768 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 880070010769 dimerization interface [polypeptide binding]; other site 880070010770 putative DNA binding site [nucleotide binding]; other site 880070010771 putative Zn2+ binding site [ion binding]; other site 880070010772 MerT mercuric transport protein; Region: MerT; cl03578 880070010773 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 880070010774 metal-binding site [ion binding] 880070010775 OsmC-like protein; Region: OsmC; pfam02566 880070010776 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 880070010777 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 880070010778 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 880070010779 DNA binding site [nucleotide binding] 880070010780 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 880070010781 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 880070010782 BNR repeat-like domain; Region: BNR_2; pfam13088 880070010783 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 880070010784 Asp-box motif; other site 880070010785 catalytic site [active] 880070010786 Protein of unknown function (DUF4038); Region: DUF4038; pfam13204 880070010787 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 880070010788 Sulfatase; Region: Sulfatase; cl17466 880070010789 BNR repeat-like domain; Region: BNR_2; pfam13088 880070010790 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 880070010791 starch binding outer membrane protein SusD; Region: SusD; cd08977 880070010792 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070010793 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070010794 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070010795 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 880070010796 FecR protein; Region: FecR; pfam04773 880070010797 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 880070010798 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880070010799 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 880070010800 DNA binding residues [nucleotide binding] 880070010801 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 880070010802 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 880070010803 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 880070010804 active site 880070010805 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 880070010806 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 880070010807 TPR repeat; Region: TPR_11; pfam13414 880070010808 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 880070010809 binding surface 880070010810 TPR repeat; Region: TPR_11; pfam13414 880070010811 TPR motif; other site 880070010812 Tetratricopeptide repeat; Region: TPR_16; pfam13432 880070010813 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 880070010814 binding surface 880070010815 TPR motif; other site 880070010816 TPR repeat; Region: TPR_11; pfam13414 880070010817 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 880070010818 DNA-binding site [nucleotide binding]; DNA binding site 880070010819 RNA-binding motif; other site 880070010820 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 880070010821 DNA-binding site [nucleotide binding]; DNA binding site 880070010822 RNA-binding motif; other site 880070010823 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_24; cd09012 880070010824 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 880070010825 SnoaL-like domain; Region: SnoaL_2; pfam12680 880070010826 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 880070010827 Ligand binding site; other site 880070010828 Putative Catalytic site; other site 880070010829 DXD motif; other site 880070010830 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 880070010831 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 880070010832 FtsX-like permease family; Region: FtsX; pfam02687 880070010833 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 880070010834 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 880070010835 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 880070010836 putative active site [active] 880070010837 substrate binding site [chemical binding]; other site 880070010838 putative cosubstrate binding site; other site 880070010839 catalytic site [active] 880070010840 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 880070010841 substrate binding site [chemical binding]; other site 880070010842 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 880070010843 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880070010844 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 880070010845 DNA binding residues [nucleotide binding] 880070010846 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 880070010847 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 880070010848 generic binding surface II; other site 880070010849 generic binding surface I; other site 880070010850 Exonuclease VII small subunit; Region: Exonuc_VII_S; pfam02609 880070010851 Ligase N family; Region: LIGANc; smart00532 880070010852 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 880070010853 nucleotide binding pocket [chemical binding]; other site 880070010854 K-X-D-G motif; other site 880070010855 catalytic site [active] 880070010856 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 880070010857 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 880070010858 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 880070010859 Dimer interface [polypeptide binding]; other site 880070010860 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 880070010861 dihydrodipicolinate synthase; Region: dapA; TIGR00674 880070010862 dimer interface [polypeptide binding]; other site 880070010863 active site 880070010864 catalytic residue [active] 880070010865 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 880070010866 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 880070010867 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 880070010868 catalytic residue [active] 880070010869 Maf-like protein; Region: Maf; pfam02545 880070010870 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 880070010871 active site 880070010872 dimer interface [polypeptide binding]; other site 880070010873 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 880070010874 uncharacterized proteins similar to the Aspergillus nidulans lactam utilization protein LamB; Region: LamB_YcsF_like_1; cd10801 880070010875 putative active site [active] 880070010876 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 880070010877 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 880070010878 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 880070010879 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 880070010880 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 880070010881 L-lactate permease; Region: Lactate_perm; cl00701 880070010882 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 880070010883 active site 880070010884 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 880070010885 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 880070010886 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 880070010887 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 880070010888 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 880070010889 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 880070010890 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 880070010891 catalytic loop [active] 880070010892 iron binding site [ion binding]; other site 880070010893 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 880070010894 Protein of unknown function (DUF4013); Region: DUF4013; pfam13197 880070010895 Protein of unknown function (DUF3380); Region: DUF3380; pfam11860 880070010896 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 880070010897 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 880070010898 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 880070010899 4Fe-4S binding domain; Region: Fer4_6; pfam12837 880070010900 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 880070010901 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 880070010902 Patatin-like phospholipase; Region: Patatin; pfam01734 880070010903 active site 880070010904 nucleophile elbow; other site 880070010905 Acetoacetate decarboxylase (ADC); Region: ADC; cl01919 880070010906 triacylglycerol lipase; Region: PLN02872 880070010907 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 880070010908 primosomal protein N' Region: priA; TIGR00595 880070010909 ATP binding site [chemical binding]; other site 880070010910 putative Mg++ binding site [ion binding]; other site 880070010911 helicase superfamily c-terminal domain; Region: HELICc; smart00490 880070010912 ATP-binding site [chemical binding]; other site 880070010913 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 880070010914 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 880070010915 catalytic residues [active] 880070010916 GSCFA family; Region: GSCFA; pfam08885 880070010917 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 880070010918 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 880070010919 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 880070010920 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 880070010921 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 880070010922 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 880070010923 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 880070010924 S-adenosylmethionine binding site [chemical binding]; other site 880070010925 Protein of unknown function (DUF525); Region: DUF525; cl01119 880070010926 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 880070010927 ligand binding site [chemical binding]; other site 880070010928 active site 880070010929 UGI interface [polypeptide binding]; other site 880070010930 catalytic site [active] 880070010931 Signal peptidase I [Intracellular trafficking and secretion]; Region: LepB; COG0681 880070010932 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 880070010933 Catalytic site [active] 880070010934 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 880070010935 dihydrodipicolinate reductase; Provisional; Region: PRK00048 880070010936 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 880070010937 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 880070010938 Protein of unknown function (DUF3141); Region: DUF3141; pfam11339 880070010939 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 880070010940 ParB-like nuclease domain; Region: ParBc; pfam02195 880070010941 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 880070010942 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 880070010943 P-loop; other site 880070010944 Magnesium ion binding site [ion binding]; other site 880070010945 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 880070010946 Magnesium ion binding site [ion binding]; other site 880070010947 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 880070010948 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 880070010949 membrane protein insertase; Provisional; Region: PRK01318 880070010950 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 880070010951 CTP synthetase; Validated; Region: pyrG; PRK05380 880070010952 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 880070010953 Catalytic site [active] 880070010954 active site 880070010955 UTP binding site [chemical binding]; other site 880070010956 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 880070010957 active site 880070010958 putative oxyanion hole; other site 880070010959 catalytic triad [active] 880070010960 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 880070010961 Right handed beta helix region; Region: Beta_helix; pfam13229 880070010962 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 880070010963 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 880070010964 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 880070010965 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 880070010966 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880070010967 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 880070010968 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880070010969 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 880070010970 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 880070010971 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880070010972 GntP family permease; Region: GntP_permease; pfam02447 880070010973 fructuronate transporter; Provisional; Region: PRK10034; cl15264 880070010974 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 880070010975 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 880070010976 active site 880070010977 intersubunit interface [polypeptide binding]; other site 880070010978 catalytic residue [active] 880070010979 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 880070010980 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 880070010981 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 880070010982 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070010983 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070010984 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070010985 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 880070010986 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 880070010987 starch binding outer membrane protein SusD; Region: SusD; cd08977 880070010988 Phosphoesterase family; Region: Phosphoesterase; pfam04185 880070010989 Phosphoesterase family; Region: Phosphoesterase; pfam04185 880070010990 Domain of unknown function (DUF756); Region: DUF756; pfam05506 880070010991 Domain of unknown function (DUF756); Region: DUF756; pfam05506 880070010992 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 880070010993 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 880070010994 NAD(P) binding site [chemical binding]; other site 880070010995 catalytic residues [active] 880070010996 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 880070010997 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 880070010998 catalytic triad [active] 880070010999 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 880070011000 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 880070011001 putative active site [active] 880070011002 metal binding site [ion binding]; metal-binding site 880070011003 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 880070011004 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 880070011005 amino acid transporter; Region: 2A0306; TIGR00909 880070011006 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 880070011007 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 880070011008 Substrate-binding site [chemical binding]; other site 880070011009 Substrate specificity [chemical binding]; other site 880070011010 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 880070011011 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 880070011012 Interphotoreceptor retinoid-binding protein; serine protease family S41; Region: Peptidase_S41_IRBP; cd07563 880070011013 active site triad [active] 880070011014 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 880070011015 starch binding outer membrane protein SusD; Region: SusD; cl17845 880070011016 SusD family; Region: SusD; pfam07980 880070011017 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070011018 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070011019 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070011020 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 880070011021 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 880070011022 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880070011023 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880070011024 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 880070011025 active site 880070011026 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070011027 Sulfatase; Region: Sulfatase; pfam00884 880070011028 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; cl17818 880070011029 TrkA-N domain; Region: TrkA_N; pfam02254 880070011030 Protein of unknown function (DUF983); Region: DUF983; cl02211 880070011031 Protein of unknown function (DUF2652); Region: DUF2652; pfam10851 880070011032 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_3; cd09620 880070011033 putative ligand binding site [chemical binding]; other site 880070011034 Uncharacterized conserved protein [Function unknown]; Region: COG5476 880070011035 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 880070011036 MlrC C-terminus; Region: MlrC_C; pfam07171 880070011037 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 880070011038 Sodium Bile acid symporter family; Region: SBF; pfam01758 880070011039 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; cl01930 880070011040 Domain of unknown function (DUF4270); Region: DUF4270; pfam14092 880070011041 Histidine kinase; Region: His_kinase; pfam06580 880070011042 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 880070011043 Response regulator receiver domain; Region: Response_reg; pfam00072 880070011044 active site 880070011045 phosphorylation site [posttranslational modification] 880070011046 intermolecular recognition site; other site 880070011047 dimerization interface [polypeptide binding]; other site 880070011048 LytTr DNA-binding domain; Region: LytTR; smart00850 880070011049 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 880070011050 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 880070011051 HlyD family secretion protein; Region: HlyD_3; pfam13437 880070011052 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 880070011053 Outer membrane efflux protein; Region: OEP; pfam02321 880070011054 Outer membrane efflux protein; Region: OEP; pfam02321 880070011055 Histidine kinase; Region: His_kinase; pfam06580 880070011056 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 880070011057 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 880070011058 active site 880070011059 phosphorylation site [posttranslational modification] 880070011060 intermolecular recognition site; other site 880070011061 dimerization interface [polypeptide binding]; other site 880070011062 LytTr DNA-binding domain; Region: LytTR; smart00850 880070011063 Vitamin K-dependent gamma-carboxylase; Region: VKG_Carbox; cl02773 880070011064 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 880070011065 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 880070011066 Vitamin K-dependent gamma-carboxylase; Region: VKG_Carbox; cl02773 880070011067 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 880070011068 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 880070011069 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 880070011070 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 880070011071 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 880070011072 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 880070011073 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 880070011074 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 880070011075 catalytic loop [active] 880070011076 iron binding site [ion binding]; other site 880070011077 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 880070011078 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 880070011079 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 880070011080 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 880070011081 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 880070011082 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 880070011083 SnoaL-like domain; Region: SnoaL_3; pfam13474 880070011084 Histidine kinase; Region: His_kinase; pfam06580 880070011085 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 880070011086 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 880070011087 active site 880070011088 phosphorylation site [posttranslational modification] 880070011089 intermolecular recognition site; other site 880070011090 dimerization interface [polypeptide binding]; other site 880070011091 LytTr DNA-binding domain; Region: LytTR; smart00850 880070011092 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 880070011093 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 880070011094 DNA binding site [nucleotide binding] 880070011095 Two component regulator propeller; Region: Reg_prop; pfam07494 880070011096 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 880070011097 GLPGLI family protein; Region: GLPGLI; TIGR01200 880070011098 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 880070011099 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 880070011100 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 880070011101 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 880070011102 DNA topoisomerase III; Provisional; Region: PRK07726 880070011103 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 880070011104 active site 880070011105 putative interdomain interaction site [polypeptide binding]; other site 880070011106 putative metal-binding site [ion binding]; other site 880070011107 putative nucleotide binding site [chemical binding]; other site 880070011108 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 880070011109 domain I; other site 880070011110 DNA binding groove [nucleotide binding] 880070011111 phosphate binding site [ion binding]; other site 880070011112 domain II; other site 880070011113 domain III; other site 880070011114 nucleotide binding site [chemical binding]; other site 880070011115 catalytic site [active] 880070011116 domain IV; other site 880070011117 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 880070011118 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 880070011119 HicB family; Region: HicB; pfam05534 880070011120 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 880070011121 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 880070011122 P-loop; other site 880070011123 Magnesium ion binding site [ion binding]; other site 880070011124 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 880070011125 Zinc-dependent metalloprotease, matrix metalloproteinase (MMP) sub-family. MMPs are responsible for a great deal of pericellular proteolysis of extracellular matrix and cell surface molecules, playing crucial roles in morphogenesis, cell fate...; Region: ZnMc_MMP; cd04278 880070011126 TIMP-binding surface; other site 880070011127 active site 880070011128 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880070011129 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 880070011130 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 880070011131 HlyD family secretion protein; Region: HlyD_3; pfam13437 880070011132 Outer membrane efflux protein; Region: OEP; pfam02321 880070011133 Outer membrane efflux protein; Region: OEP; pfam02321 880070011134 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 880070011135 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 880070011136 Amino acid permease; Region: AA_permease_2; pfam13520 880070011137 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 880070011138 Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]; Region: Fur; COG0735 880070011139 metal binding site 2 [ion binding]; metal-binding site 880070011140 putative DNA binding helix; other site 880070011141 metal binding site 1 [ion binding]; metal-binding site 880070011142 dimer interface [polypeptide binding]; other site 880070011143 structural Zn2+ binding site [ion binding]; other site 880070011144 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 880070011145 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 880070011146 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 880070011147 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 880070011148 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 880070011149 MgtC family; Region: MgtC; pfam02308 880070011150 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 880070011151 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 880070011152 putative DNA binding helix; other site 880070011153 metal binding site 2 [ion binding]; metal-binding site 880070011154 metal binding site 1 [ion binding]; metal-binding site 880070011155 dimer interface [polypeptide binding]; other site 880070011156 structural Zn2+ binding site [ion binding]; other site 880070011157 Divergent AAA domain; Region: AAA_4; pfam04326 880070011158 Short C-terminal domain; Region: SHOCT; pfam09851 880070011159 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 880070011160 Nitrogen regulatory protein P-II; Region: P-II; smart00938 880070011161 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 880070011162 four helix bundle protein; Region: TIGR02436 880070011163 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 880070011164 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 880070011165 HlyD family secretion protein; Region: HlyD_3; pfam13437 880070011166 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 880070011167 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 880070011168 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 880070011169 putative DNA binding site [nucleotide binding]; other site 880070011170 putative Zn2+ binding site [ion binding]; other site 880070011171 MerT mercuric transport protein; Region: MerT; cl03578 880070011172 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 880070011173 metal-binding site [ion binding] 880070011174 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 880070011175 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 880070011176 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 880070011177 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 880070011178 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 880070011179 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 880070011180 metal-binding site [ion binding] 880070011181 mercuric reductase; Region: MerA; TIGR02053 880070011182 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 880070011183 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 880070011184 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 880070011185 metal-binding site [ion binding] 880070011186 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 880070011187 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 880070011188 metal-binding site [ion binding] 880070011189 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 880070011190 Soluble P-type ATPase [General function prediction only]; Region: COG4087 880070011191 Helix-turn-helix domain; Region: HTH_18; pfam12833 880070011192 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 880070011193 fructose-bisphosphate aldolase; Provisional; Region: PRK09250 880070011194 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 880070011195 putative active site; other site 880070011196 catalytic residue [active] 880070011197 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 880070011198 putative substrate translocation pore; other site 880070011199 Major Facilitator Superfamily; Region: MFS_1; pfam07690 880070011200 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 880070011201 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 880070011202 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 880070011203 Soluble P-type ATPase [General function prediction only]; Region: COG4087 880070011204 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 880070011205 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 880070011206 active site residue [active] 880070011207 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 880070011208 phosphoribosylpyrophosphate synthetase; Provisional; Region: PRK07199 880070011209 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 880070011210 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 880070011211 active site 880070011212 thymidine phosphorylase; Provisional; Region: PRK04350 880070011213 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 880070011214 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 880070011215 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 880070011216 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 880070011217 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 880070011218 Beta-Casp domain; Region: Beta-Casp; smart01027 880070011219 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 880070011220 ATP cone domain; Region: ATP-cone; pfam03477 880070011221 Restriction endonuclease; Region: Mrr_cat; pfam04471 880070011222 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070011223 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 880070011224 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 880070011225 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 880070011226 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 880070011227 dimer interface [polypeptide binding]; other site 880070011228 PYR/PP interface [polypeptide binding]; other site 880070011229 TPP binding site [chemical binding]; other site 880070011230 substrate binding site [chemical binding]; other site 880070011231 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 880070011232 Domain of unknown function; Region: EKR; pfam10371 880070011233 4Fe-4S binding domain; Region: Fer4_6; pfam12837 880070011234 4Fe-4S binding domain; Region: Fer4; pfam00037 880070011235 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 880070011236 TPP-binding site [chemical binding]; other site 880070011237 dimer interface [polypeptide binding]; other site 880070011238 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 880070011239 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 880070011240 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 880070011241 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 880070011242 SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. In this subgroup, SpoIVFB (sporulation protein, stage IV cell...; Region: S2P-M50_SpoIVFB_CBS; cd06164 880070011243 Peptidase family M50; Region: Peptidase_M50; pfam02163 880070011244 active site 880070011245 putative substrate binding region [chemical binding]; other site 880070011246 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 880070011247 FOG: CBS domain [General function prediction only]; Region: COG0517 880070011248 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 880070011249 6-phosphofructokinase; Provisional; Region: PRK03202 880070011250 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 880070011251 active site 880070011252 ADP/pyrophosphate binding site [chemical binding]; other site 880070011253 dimerization interface [polypeptide binding]; other site 880070011254 allosteric effector site; other site 880070011255 fructose-1,6-bisphosphate binding site; other site 880070011256 This family is most closely related to the oligosaccharide phosphorylase domain family and other unidentified sequences. Oligosaccharide phosphorylase catalyzes the breakdown of oligosaccharides into glucose-1-phosphate units. They are important...; Region: GT1_Glycogen_Phosphorylase_like; cd04299 880070011257 putative homodimer interface [polypeptide binding]; other site 880070011258 putative active site pocket [active] 880070011259 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 880070011260 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 880070011261 Serine hydrolase; Region: Ser_hydrolase; cl17834 880070011262 Protein of unknown function (DUF3347); Region: DUF3347; pfam11827 880070011263 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_5; cd11352 880070011264 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 880070011265 active site 880070011266 catalytic site [active] 880070011267 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 880070011268 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 880070011269 glyceraldehyde-3-phosphate dehydrogenase; Provisional; Region: PRK04207 880070011270 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 880070011271 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 880070011272 glyceraldehyde-3-phosphate dehydrogenase; Provisional; Region: PRK04207 880070011273 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 880070011274 Ion channel; Region: Ion_trans_2; pfam07885 880070011275 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 880070011276 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 880070011277 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 880070011278 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 880070011279 Ligand Binding Site [chemical binding]; other site 880070011280 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 880070011281 Ligand Binding Site [chemical binding]; other site 880070011282 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 880070011283 Nitrogen regulatory protein P-II; Region: P-II; smart00938 880070011284 Short C-terminal domain; Region: SHOCT; pfam09851 880070011285 YHS domain; Region: YHS; pfam04945 880070011286 Domain of unknown function DUF302; Region: DUF302; pfam03625 880070011287 Helix-turn-helix domain; Region: HTH_18; pfam12833 880070011288 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 880070011289 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 880070011290 Ion channel; Region: Ion_trans_2; pfam07885 880070011291 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 880070011292 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 880070011293 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 880070011294 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 880070011295 active site 880070011296 FMN binding site [chemical binding]; other site 880070011297 substrate binding site [chemical binding]; other site 880070011298 3Fe-4S cluster binding site [ion binding]; other site 880070011299 Amino acid permease; Region: AA_permease_2; pfam13520 880070011300 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 880070011301 active site residue [active] 880070011302 Short C-terminal domain; Region: SHOCT; pfam09851 880070011303 Domain of unknown function DUF302; Region: DUF302; pfam03625 880070011304 Domain of unknown function DUF302; Region: DUF302; cl01364 880070011305 Domain of unknown function (DUF305); Region: DUF305; cl17794 880070011306 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 880070011307 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 880070011308 Multicopper oxidase; Region: Cu-oxidase; pfam00394 880070011309 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 880070011310 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 880070011311 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 880070011312 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 880070011313 Helix-turn-helix domain; Region: HTH_18; pfam12833 880070011314 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 880070011315 Protein of unknown function (DUF3347); Region: DUF3347; pfam11827 880070011316 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 880070011317 HlyD family secretion protein; Region: HlyD_3; pfam13437 880070011318 Protein of unknown function (DUF3347); Region: DUF3347; pfam11827 880070011319 Outer membrane efflux protein; Region: OEP; pfam02321 880070011320 Outer membrane efflux protein; Region: OEP; pfam02321 880070011321 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 880070011322 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 880070011323 YceI-like domain; Region: YceI; smart00867 880070011324 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 880070011325 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 880070011326 DNA binding residues [nucleotide binding] 880070011327 dimerization interface [polypeptide binding]; other site 880070011328 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 880070011329 Coenzyme A binding pocket [chemical binding]; other site 880070011330 CHC2 zinc finger; Region: zf-CHC2; cl17510 880070011331 Toprim-like; Region: Toprim_2; pfam13155 880070011332 active site 880070011333 metal binding site [ion binding]; metal-binding site 880070011334 Virulence-associated protein E; Region: VirE; pfam05272 880070011335 Helix-turn-helix domain; Region: HTH_17; pfam12728 880070011336 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 880070011337 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 880070011338 Peptidase family M23; Region: Peptidase_M23; pfam01551 880070011339 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 880070011340 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 880070011341 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 880070011342 catalytic triad [active] 880070011343 transketolase; Reviewed; Region: PRK05899 880070011344 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 880070011345 TPP-binding site [chemical binding]; other site 880070011346 dimer interface [polypeptide binding]; other site 880070011347 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 880070011348 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 880070011349 PYR/PP interface [polypeptide binding]; other site 880070011350 dimer interface [polypeptide binding]; other site 880070011351 TPP binding site [chemical binding]; other site 880070011352 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 880070011353 Methane oxygenase PmoA; Region: PmoA; pfam14100 880070011354 epidermal growth factor-like protein (EGF-like protein); Provisional; Region: PHA03099 880070011355 Protein of unknown function (DUF1003); Region: DUF1003; pfam06210 880070011356 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 880070011357 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 880070011358 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 880070011359 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 880070011360 active site 880070011361 HIGH motif; other site 880070011362 nucleotide binding site [chemical binding]; other site 880070011363 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 880070011364 KMSK motif region; other site 880070011365 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 880070011366 tRNA binding surface [nucleotide binding]; other site 880070011367 anticodon binding site; other site 880070011368 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 880070011369 catalytic residues [active] 880070011370 dimer interface [polypeptide binding]; other site 880070011371 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 880070011372 UbiA prenyltransferase family; Region: UbiA; pfam01040 880070011373 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 880070011374 Ligand Binding Site [chemical binding]; other site 880070011375 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 880070011376 Ligand Binding Site [chemical binding]; other site 880070011377 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 880070011378 putative rRNA binding site [nucleotide binding]; other site 880070011379 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 880070011380 NAD(P) binding pocket [chemical binding]; other site 880070011381 Transposase domain (DUF772); Region: DUF772; pfam05598 880070011382 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 880070011383 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 880070011384 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 880070011385 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 880070011386 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 880070011387 histidinol dehydrogenase; Region: hisD; TIGR00069 880070011388 NAD binding site [chemical binding]; other site 880070011389 dimerization interface [polypeptide binding]; other site 880070011390 product binding site; other site 880070011391 substrate binding site [chemical binding]; other site 880070011392 zinc binding site [ion binding]; other site 880070011393 catalytic residues [active] 880070011394 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 880070011395 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 880070011396 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880070011397 homodimer interface [polypeptide binding]; other site 880070011398 catalytic residue [active] 880070011399 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 880070011400 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 880070011401 active site 880070011402 motif I; other site 880070011403 motif II; other site 880070011404 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 880070011405 putative active site pocket [active] 880070011406 4-fold oligomerization interface [polypeptide binding]; other site 880070011407 metal binding residues [ion binding]; metal-binding site 880070011408 3-fold/trimer interface [polypeptide binding]; other site 880070011409 Transposase domain (DUF772); Region: DUF772; pfam05598 880070011410 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 880070011411 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 880070011412 HEAT repeats; Region: HEAT_2; pfam13646 880070011413 HEAT repeats; Region: HEAT_2; pfam13646 880070011414 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 880070011415 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 880070011416 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 880070011417 HEAT repeats; Region: HEAT_2; pfam13646 880070011418 HEAT repeats; Region: HEAT_2; pfam13646 880070011419 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 880070011420 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 880070011421 dimerization interface [polypeptide binding]; other site 880070011422 putative active cleft [active] 880070011423 Penicillinase repressor; Region: Pencillinase_R; pfam03965 880070011424 Antirepressor regulating drug resistance, predicted signal transduction N-terminal membrane component [Transcription / Signal transduction mechanisms]; Region: MecR1; COG4219 880070011425 Gram-negative bacterial tonB protein; Region: TonB; cl10048 880070011426 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 880070011427 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 880070011428 active site 880070011429 HIGH motif; other site 880070011430 dimer interface [polypeptide binding]; other site 880070011431 KMSKS motif; other site 880070011432 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 880070011433 RNA binding surface [nucleotide binding]; other site 880070011434 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 880070011435 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 880070011436 short chain dehydrogenase; Provisional; Region: PRK07035 880070011437 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880070011438 NAD(P) binding site [chemical binding]; other site 880070011439 active site 880070011440 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 880070011441 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 880070011442 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 880070011443 putative acyl-acceptor binding pocket; other site 880070011444 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 880070011445 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 880070011446 active site 880070011447 nucleophile elbow; other site 880070011448 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 880070011449 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 880070011450 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 880070011451 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 880070011452 Walker A/P-loop; other site 880070011453 ATP binding site [chemical binding]; other site 880070011454 Q-loop/lid; other site 880070011455 ABC transporter signature motif; other site 880070011456 Walker B; other site 880070011457 D-loop; other site 880070011458 H-loop/switch region; other site 880070011459 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 880070011460 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 880070011461 CoA-ligase; Region: Ligase_CoA; pfam00549 880070011462 Transposase; Region: HTH_Tnp_1; cl17663 880070011463 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 880070011464 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 880070011465 D-mannonate dehydratase (UxuA); Region: UxuA; pfam03786 880070011466 mannonate dehydratase; Region: uxuA; TIGR00695 880070011467 Neutral/alkaline non-lysosomal ceramidase; Region: Ceramidase_alk; cl04712 880070011468 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 880070011469 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 880070011470 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 880070011471 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 880070011472 Sodium Bile acid symporter family; Region: SBF; cl17470 880070011473 bile acid transporter; Region: bass; TIGR00841 880070011474 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 880070011475 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown AAK14816-like; Region: LPLAT_AAK14816-like; cd07992 880070011476 putative acyl-acceptor binding pocket; other site 880070011477 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 880070011478 active site clefts [active] 880070011479 zinc binding site [ion binding]; other site 880070011480 dimer interface [polypeptide binding]; other site 880070011481 GH3 auxin-responsive promoter; Region: GH3; pfam03321 880070011482 H+ Antiporter protein; Region: 2A0121; TIGR00900 880070011483 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 880070011484 putative substrate translocation pore; other site 880070011485 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 880070011486 BCCT family transporter; Region: BCCT; pfam02028 880070011487 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 880070011488 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5368 880070011489 Putative glucoamylase; Region: Glycoamylase; pfam10091 880070011490 Bacterial Ig-like domain; Region: Big_5; pfam13205 880070011491 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5368 880070011492 Putative glucoamylase; Region: Glycoamylase; pfam10091 880070011493 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 880070011494 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 880070011495 starch binding outer membrane protein SusD; Region: SusD; cl17845 880070011496 SusD family; Region: SusD; pfam07980 880070011497 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070011498 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070011499 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070011500 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 880070011501 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 880070011502 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 880070011503 Response regulator receiver domain; Region: Response_reg; pfam00072 880070011504 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 880070011505 active site 880070011506 phosphorylation site [posttranslational modification] 880070011507 intermolecular recognition site; other site 880070011508 dimerization interface [polypeptide binding]; other site 880070011509 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 880070011510 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 880070011511 metal binding site [ion binding]; metal-binding site 880070011512 substrate binding pocket [chemical binding]; other site 880070011513 Cytochrome c; Region: Cytochrom_C; cl11414 880070011514 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 880070011515 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070011516 Sulfatase; Region: Sulfatase; pfam00884 880070011517 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070011518 Sulfatase; Region: Sulfatase; cl17466 880070011519 Sulfatase; Region: Sulfatase; cl17466 880070011520 Uncharacterized conserved protein [Function unknown]; Region: COG1262 880070011521 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 880070011522 Sulfatase; Region: Sulfatase; cl17466 880070011523 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070011524 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 880070011525 B12 binding site [chemical binding]; other site 880070011526 Radical SAM superfamily; Region: Radical_SAM; pfam04055 880070011527 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070011528 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070011529 Sulfatase; Region: Sulfatase; pfam00884 880070011530 Glycosyl hydrolase family 10; Region: Glyco_10; smart00633 880070011531 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070011532 Sulfatase; Region: Sulfatase; pfam00884 880070011533 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 880070011534 starch binding outer membrane protein SusD; Region: SusD; cl17845 880070011535 SusD family; Region: SusD; pfam07980 880070011536 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070011537 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070011538 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070011539 Sulfatase; Region: Sulfatase; cl17466 880070011540 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070011541 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070011542 Sulfatase; Region: Sulfatase; pfam00884 880070011543 starch binding outer membrane protein SusD; Region: SusD; cl17845 880070011544 SusD family; Region: SusD; pfam07980 880070011545 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070011546 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070011547 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 880070011548 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 880070011549 FecR protein; Region: FecR; pfam04773 880070011550 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 880070011551 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880070011552 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 880070011553 Phosphodiesterase/alkaline phosphatase D [Inorganic ion transport and metabolism]; Region: PhoD; COG3540 880070011554 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 880070011555 putative active site [active] 880070011556 putative metal binding site [ion binding]; other site 880070011557 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 880070011558 starch binding outer membrane protein SusD; Region: SusD; cd08977 880070011559 SusD family; Region: SusD; pfam07980 880070011560 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070011561 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070011562 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070011563 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 880070011564 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 880070011565 putative active site [active] 880070011566 putative metal binding site [ion binding]; other site 880070011567 PhoD-like phosphatase; Region: PhoD; pfam09423 880070011568 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 880070011569 putative active site [active] 880070011570 putative metal binding site [ion binding]; other site 880070011571 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 880070011572 starch binding outer membrane protein SusD; Region: SusD; cd08977 880070011573 SusD family; Region: SusD; pfam07980 880070011574 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070011575 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070011576 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070011577 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 880070011578 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 880070011579 starch binding outer membrane protein SusD; Region: SusD; cl17845 880070011580 SusD family; Region: SusD; pfam07980 880070011581 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070011582 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070011583 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070011584 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 880070011585 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 880070011586 FecR protein; Region: FecR; pfam04773 880070011587 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 880070011588 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880070011589 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 880070011590 DNA binding residues [nucleotide binding] 880070011591 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 880070011592 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 880070011593 active site 880070011594 catalytic site [active] 880070011595 mannonate dehydratase; Provisional; Region: PRK03906 880070011596 mannonate dehydratase; Region: uxuA; TIGR00695 880070011597 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 880070011598 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 880070011599 Trehalose utilisation; Region: ThuA; pfam06283 880070011600 Methane oxygenase PmoA; Region: PmoA; pfam14100 880070011601 Transcriptional regulators [Transcription]; Region: PurR; COG1609 880070011602 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 880070011603 DNA binding site [nucleotide binding] 880070011604 domain linker motif; other site 880070011605 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 880070011606 ligand binding site [chemical binding]; other site 880070011607 dimerization interface [polypeptide binding]; other site 880070011608 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 880070011609 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 880070011610 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 880070011611 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 880070011612 putative DNA binding site [nucleotide binding]; other site 880070011613 putative Zn2+ binding site [ion binding]; other site 880070011614 AsnC family; Region: AsnC_trans_reg; pfam01037 880070011615 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 880070011616 putative ABC transporter; Region: ycf24; CHL00085 880070011617 FeS assembly ATPase SufC; Region: sufC; TIGR01978 880070011618 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 880070011619 Walker A/P-loop; other site 880070011620 ATP binding site [chemical binding]; other site 880070011621 Q-loop/lid; other site 880070011622 ABC transporter signature motif; other site 880070011623 Walker B; other site 880070011624 D-loop; other site 880070011625 H-loop/switch region; other site 880070011626 FeS assembly protein SufD; Region: sufD; TIGR01981 880070011627 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 880070011628 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 880070011629 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 880070011630 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 880070011631 catalytic residue [active] 880070011632 Fe-S metabolism associated domain; Region: SufE; cl00951 880070011633 Domain of unknown function DUF59; Region: DUF59; cl00941 880070011634 bacillithiol system oxidoreductase, YphP/YqiW family; Region: YphP_YqiW; TIGR04191 880070011635 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 880070011636 dimer interface [polypeptide binding]; other site 880070011637 Citrate synthase; Region: Citrate_synt; pfam00285 880070011638 active site 880070011639 citrylCoA binding site [chemical binding]; other site 880070011640 NADH binding [chemical binding]; other site 880070011641 cationic pore residues; other site 880070011642 oxalacetate/citrate binding site [chemical binding]; other site 880070011643 coenzyme A binding site [chemical binding]; other site 880070011644 catalytic triad [active] 880070011645 helicase 45; Provisional; Region: PTZ00424 880070011646 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 880070011647 ATP binding site [chemical binding]; other site 880070011648 Mg++ binding site [ion binding]; other site 880070011649 motif III; other site 880070011650 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 880070011651 nucleotide binding region [chemical binding]; other site 880070011652 ATP-binding site [chemical binding]; other site 880070011653 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 880070011654 RNA binding site [nucleotide binding]; other site 880070011655 2-dehydropantoate 2-reductase; Region: apbA_panE; TIGR00745 880070011656 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 880070011657 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 880070011658 Methyltransferase domain; Region: Methyltransf_31; pfam13847 880070011659 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 880070011660 S-adenosylmethionine binding site [chemical binding]; other site 880070011661 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 880070011662 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 880070011663 PAS fold; Region: PAS_3; pfam08447 880070011664 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 880070011665 GAF domain; Region: GAF; pfam01590 880070011666 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 880070011667 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 880070011668 putative active site [active] 880070011669 heme pocket [chemical binding]; other site 880070011670 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 880070011671 putative active site [active] 880070011672 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880070011673 heme pocket [chemical binding]; other site 880070011674 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 880070011675 dimer interface [polypeptide binding]; other site 880070011676 phosphorylation site [posttranslational modification] 880070011677 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 880070011678 ATP binding site [chemical binding]; other site 880070011679 Mg2+ binding site [ion binding]; other site 880070011680 G-X-G motif; other site 880070011681 GAF domain; Region: GAF; pfam01590 880070011682 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 880070011683 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 880070011684 PAS fold; Region: PAS_3; pfam08447 880070011685 putative active site [active] 880070011686 heme pocket [chemical binding]; other site 880070011687 PAS domain; Region: PAS_9; pfam13426 880070011688 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 880070011689 putative active site [active] 880070011690 heme pocket [chemical binding]; other site 880070011691 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 880070011692 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 880070011693 putative active site [active] 880070011694 heme pocket [chemical binding]; other site 880070011695 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 880070011696 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 880070011697 putative active site [active] 880070011698 heme pocket [chemical binding]; other site 880070011699 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 880070011700 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 880070011701 putative active site [active] 880070011702 heme pocket [chemical binding]; other site 880070011703 PAS domain; Region: PAS; smart00091 880070011704 PAS fold; Region: PAS_3; pfam08447 880070011705 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 880070011706 heme pocket [chemical binding]; other site 880070011707 putative active site [active] 880070011708 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 880070011709 PAS fold; Region: PAS_3; pfam08447 880070011710 putative active site [active] 880070011711 heme pocket [chemical binding]; other site 880070011712 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 880070011713 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 880070011714 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 880070011715 putative active site [active] 880070011716 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 880070011717 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 880070011718 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 880070011719 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 880070011720 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 880070011721 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 880070011722 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 880070011723 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 880070011724 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 880070011725 Alginate Lyase A1-III; enzymatically depolymerizes alginate, a complex copolymer of beta-D-mannuronate and alpha-L-guluronate, by cleaving the beta-(1,4) glycosidic bond; Region: AlgLyase; cl00179 880070011726 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 880070011727 Right handed beta helix region; Region: Beta_helix; pfam13229 880070011728 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 880070011729 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 880070011730 starch binding outer membrane protein SusD; Region: SusD; cl17845 880070011731 SusD family; Region: SusD; pfam07980 880070011732 Secretin and TonB N terminus short domain; Region: STN; pfam07660 880070011733 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070011734 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070011735 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070011736 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 880070011737 FecR protein; Region: FecR; pfam04773 880070011738 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 880070011739 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880070011740 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 880070011741 DNA binding residues [nucleotide binding] 880070011742 Helix-turn-helix domain; Region: HTH_18; pfam12833 880070011743 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 880070011744 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 880070011745 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 880070011746 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 880070011747 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 880070011748 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 880070011749 DNA-binding site [nucleotide binding]; DNA binding site 880070011750 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 880070011751 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880070011752 homodimer interface [polypeptide binding]; other site 880070011753 catalytic residue [active] 880070011754 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 880070011755 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 880070011756 homodimer interface [polypeptide binding]; other site 880070011757 substrate-cofactor binding pocket; other site 880070011758 catalytic residue [active] 880070011759 hypothetical protein; Provisional; Region: PRK09256 880070011760 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 880070011761 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 880070011762 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880070011763 Walker A/P-loop; other site 880070011764 ATP binding site [chemical binding]; other site 880070011765 Q-loop/lid; other site 880070011766 ABC transporter signature motif; other site 880070011767 Walker B; other site 880070011768 D-loop; other site 880070011769 H-loop/switch region; other site 880070011770 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 880070011771 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 880070011772 helicase 45; Provisional; Region: PTZ00424 880070011773 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 880070011774 ATP binding site [chemical binding]; other site 880070011775 Mg++ binding site [ion binding]; other site 880070011776 motif III; other site 880070011777 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 880070011778 nucleotide binding region [chemical binding]; other site 880070011779 ATP-binding site [chemical binding]; other site 880070011780 Predicted membrane protein [Function unknown]; Region: COG4270 880070011781 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 880070011782 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 880070011783 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 880070011784 ATPase family associated with various cellular activities (AAA); Region: AAA; pfam00004 880070011785 Walker A motif; other site 880070011786 ATP binding site [chemical binding]; other site 880070011787 Walker B motif; other site 880070011788 arginine finger; other site 880070011789 TPR repeat; Region: TPR_11; pfam13414 880070011790 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 880070011791 binding surface 880070011792 TPR motif; other site 880070011793 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 880070011794 binding surface 880070011795 TPR motif; other site 880070011796 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 880070011797 binding surface 880070011798 TPR repeat; Region: TPR_11; pfam13414 880070011799 TPR motif; other site 880070011800 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880070011801 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 880070011802 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 880070011803 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 880070011804 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 880070011805 conserved hypothetical protein, phage tail-like region; Region: TIGR02243 880070011806 conserved hypothetical protein, phage tail-like region; Region: TIGR02243 880070011807 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 880070011808 PAAR motif; Region: PAAR_motif; pfam05488 880070011809 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 880070011810 Phage protein D [General function prediction only]; Region: COG3500 880070011811 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 880070011812 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 880070011813 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; pfam06841 880070011814 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; pfam06841 880070011815 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 880070011816 Phage tail sheath protein FI [General function prediction only]; Region: COG3497 880070011817 Protein of unknown function (DUF4255); Region: DUF4255; pfam14065 880070011818 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 880070011819 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 880070011820 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 880070011821 TrkA-N domain; Region: TrkA_N; pfam02254 880070011822 hypothetical protein; Provisional; Region: PRK00967 880070011823 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 880070011824 Thermus thermophiles TTHB029 and similar proteins; Region: YdjC_TTHB029_like; cd10802 880070011825 putative active site [active] 880070011826 YdjC motif; other site 880070011827 Mg binding site [ion binding]; other site 880070011828 homodimer interface [polypeptide binding]; other site 880070011829 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 880070011830 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 880070011831 dimer interface [polypeptide binding]; other site 880070011832 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 880070011833 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 880070011834 conserved cys residue [active] 880070011835 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 880070011836 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 880070011837 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2859 880070011838 Protein of unknown function (DUF3253); Region: DUF3253; pfam11625 880070011839 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 880070011840 Radical SAM superfamily; Region: Radical_SAM; pfam04055 880070011841 FeS/SAM binding site; other site 880070011842 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 880070011843 S-adenosylmethionine binding site [chemical binding]; other site 880070011844 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 880070011845 active site 880070011846 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 880070011847 Metallo-dependent hydrolases, subgroup C is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_C; cd01309 880070011848 active site 880070011849 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 880070011850 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 880070011851 active site 880070011852 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 880070011853 NlpC/P60 family; Region: NLPC_P60; pfam00877 880070011854 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 880070011855 PA_GCPII_like: Protease-associated domain containing protein, glutamate carboxypeptidase II (GCPII)-like. This group contains various PA domain-containing proteins similar to GCPII including, GCPIII (NAALADase2) and NAALADase L. These proteins belong to...; Region: PA_GCPII_like; cd02121 880070011856 apical/protease domain interface [polypeptide binding]; other site 880070011857 substrate binding [chemical binding]; other site 880070011858 dimer interface [polypeptide binding]; other site 880070011859 M28 Zn-peptidase prostate-specific membrane antigen; Region: M28_PSMA_like; cd08022 880070011860 dimer interface [polypeptide binding]; other site 880070011861 Peptidase family M28; Region: Peptidase_M28; pfam04389 880070011862 active site 880070011863 metal binding site [ion binding]; metal-binding site 880070011864 Transferrin receptor-like dimerisation domain; Region: TFR_dimer; pfam04253 880070011865 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 880070011866 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 880070011867 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 880070011868 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 880070011869 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 880070011870 GTP binding site; other site 880070011871 molybdenum cofactor biosynthesis protein MoaC; Provisional; Region: moaC; PRK09364 880070011872 trimer interface [polypeptide binding]; other site 880070011873 dimer interface [polypeptide binding]; other site 880070011874 putative active site [active] 880070011875 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 880070011876 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 880070011877 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 880070011878 catalytic residue [active] 880070011879 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 880070011880 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 880070011881 active site 880070011882 catalytic residues [active] 880070011883 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 880070011884 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 880070011885 homodimer interface [polypeptide binding]; other site 880070011886 substrate-cofactor binding pocket; other site 880070011887 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880070011888 catalytic residue [active] 880070011889 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 880070011890 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 880070011891 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 880070011892 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 880070011893 active site 880070011894 metal binding site [ion binding]; metal-binding site 880070011895 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 880070011896 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 880070011897 active site 880070011898 catalytic site [active] 880070011899 Uncharacterized conserved protein [Function unknown]; Region: COG3379 880070011900 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 880070011901 Sulfatase; Region: Sulfatase; cl17466 880070011902 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 880070011903 domain in bacterial beta-glucosidases other glycosidases, glycosyltransferases, proteases, amidases, yeast adhesins, and bacterial toxins; Region: PA14; smart00758 880070011904 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 880070011905 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 880070011906 active site 880070011907 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 880070011908 dimer interface [polypeptide binding]; other site 880070011909 substrate binding site [chemical binding]; other site 880070011910 catalytic residues [active] 880070011911 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 880070011912 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 880070011913 argininosuccinate synthase; Provisional; Region: PRK13820 880070011914 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 880070011915 Ligand Binding Site [chemical binding]; other site 880070011916 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 880070011917 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 880070011918 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 880070011919 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 880070011920 inhibitor-cofactor binding pocket; inhibition site 880070011921 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880070011922 catalytic residue [active] 880070011923 N-acetylornithine carbamoyltransferase; Reviewed; Region: PRK04523 880070011924 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 880070011925 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 880070011926 AAK_NAGK-like: N-Acetyl-L-glutamate kinase (NAGK)-like . Included in this CD are the Escherichia coli and Pseudomonas aeruginosa type NAGKs which catalyze the phosphorylation of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine...; Region: AAK_NAGK-like; cd04238 880070011927 nucleotide binding site [chemical binding]; other site 880070011928 N-acetyl-L-glutamate binding site [chemical binding]; other site 880070011929 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 880070011930 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like5; cd05651 880070011931 metal binding site [ion binding]; metal-binding site 880070011932 dimer interface [polypeptide binding]; other site 880070011933 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 880070011934 Lyase; Region: Lyase_1; pfam00206 880070011935 active sites [active] 880070011936 tetramer interface [polypeptide binding]; other site 880070011937 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 880070011938 Major Facilitator Superfamily; Region: MFS_1; pfam07690 880070011939 putative substrate translocation pore; other site 880070011940 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 880070011941 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 880070011942 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 880070011943 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 880070011944 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 880070011945 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR1; cd08267 880070011946 putative NAD(P) binding site [chemical binding]; other site 880070011947 Domain of unknown function (DUF336); Region: DUF336; pfam03928 880070011948 Cupin domain; Region: Cupin_2; pfam07883 880070011949 Helix-turn-helix domain; Region: HTH_18; pfam12833 880070011950 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 880070011951 Trehalose utilisation; Region: ThuA; pfam06283 880070011952 conserved cys residue [active] 880070011953 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 880070011954 HEAT repeats; Region: HEAT_2; pfam13646 880070011955 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 880070011956 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 880070011957 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; cl12060 880070011958 DNA interaction; other site 880070011959 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 880070011960 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 880070011961 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 880070011962 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 880070011963 TrkA-C domain; Region: TrkA_C; pfam02080 880070011964 PAS domain; Region: PAS_9; pfam13426 880070011965 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 880070011966 putative active site [active] 880070011967 heme pocket [chemical binding]; other site 880070011968 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 880070011969 dimer interface [polypeptide binding]; other site 880070011970 phosphorylation site [posttranslational modification] 880070011971 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 880070011972 ATP binding site [chemical binding]; other site 880070011973 Mg2+ binding site [ion binding]; other site 880070011974 G-X-G motif; other site 880070011975 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 880070011976 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 880070011977 active site 880070011978 phosphorylation site [posttranslational modification] 880070011979 intermolecular recognition site; other site 880070011980 dimerization interface [polypeptide binding]; other site 880070011981 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 880070011982 PAS domain; Region: PAS_9; pfam13426 880070011983 putative active site [active] 880070011984 heme pocket [chemical binding]; other site 880070011985 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 880070011986 dimer interface [polypeptide binding]; other site 880070011987 phosphorylation site [posttranslational modification] 880070011988 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 880070011989 ATP binding site [chemical binding]; other site 880070011990 Mg2+ binding site [ion binding]; other site 880070011991 G-X-G motif; other site 880070011992 Response regulator receiver domain; Region: Response_reg; pfam00072 880070011993 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 880070011994 active site 880070011995 phosphorylation site [posttranslational modification] 880070011996 intermolecular recognition site; other site 880070011997 dimerization interface [polypeptide binding]; other site 880070011998 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070011999 Sulfatase; Region: Sulfatase; pfam00884 880070012000 starch binding outer membrane protein SusD; Region: SusD; cl17845 880070012001 SusD family; Region: SusD; pfam07980 880070012002 Secretin and TonB N terminus short domain; Region: STN; pfam07660 880070012003 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070012004 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070012005 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 880070012006 FecR protein; Region: FecR; pfam04773 880070012007 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 880070012008 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 880070012009 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880070012010 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 880070012011 DNA binding residues [nucleotide binding] 880070012012 hypothetical protein; Validated; Region: PRK00029 880070012013 Uncharacterized conserved protein [Function unknown]; Region: COG0397 880070012014 Protein of unknown function (DUF3703); Region: DUF3703; pfam12487 880070012015 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070012016 Sulfatase; Region: Sulfatase; pfam00884 880070012017 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 880070012018 starch binding outer membrane protein SusD; Region: SusD; cd08977 880070012019 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070012020 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070012021 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 880070012022 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 880070012023 FecR protein; Region: FecR; pfam04773 880070012024 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 880070012025 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880070012026 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 880070012027 DNA binding residues [nucleotide binding] 880070012028 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 880070012029 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 880070012030 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 880070012031 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 880070012032 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 880070012033 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 880070012034 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 880070012035 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 880070012036 PhnA protein; Region: PhnA; pfam03831 880070012037 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 880070012038 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 880070012039 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 880070012040 ATP binding site [chemical binding]; other site 880070012041 putative Mg++ binding site [ion binding]; other site 880070012042 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 880070012043 nucleotide binding region [chemical binding]; other site 880070012044 ATP-binding site [chemical binding]; other site 880070012045 DEAD/H associated; Region: DEAD_assoc; pfam08494 880070012046 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 880070012047 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 880070012048 choline dehydrogenase; Validated; Region: PRK02106 880070012049 lycopene cyclase; Region: lycopene_cycl; TIGR01789 880070012050 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 880070012051 Bacillus subtilis NAD+-dependent betaine aldehyde dehydrogenase-like; Region: ALDH_BADH-GbsA; cd07119 880070012052 glycine betaine aldehyde dehydrogenase; Region: BADH; TIGR01804 880070012053 tetramerization interface [polypeptide binding]; other site 880070012054 NAD(P) binding site [chemical binding]; other site 880070012055 catalytic residues [active] 880070012056 Na(+)- and Cl(-)-dependent choline cotransporter CHT and related proteins; solute-binding domain; Region: SLC5sbd_CHT; cd11474 880070012057 Na binding site [ion binding]; other site 880070012058 putative glycosylation site [posttranslational modification]; other site 880070012059 putative glycosylation site [posttranslational modification]; other site 880070012060 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cl00226 880070012061 active site 880070012062 acetolactate synthase; Reviewed; Region: PRK08322 880070012063 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 880070012064 PYR/PP interface [polypeptide binding]; other site 880070012065 dimer interface [polypeptide binding]; other site 880070012066 TPP binding site [chemical binding]; other site 880070012067 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 880070012068 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 880070012069 TPP-binding site [chemical binding]; other site 880070012070 dimer interface [polypeptide binding]; other site 880070012071 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 880070012072 Uncharacterized ALDH ( RL0313) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_RL0313; cd07148 880070012073 NAD(P) binding site [chemical binding]; other site 880070012074 catalytic residues [active] 880070012075 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 880070012076 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 880070012077 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 880070012078 Protein of unknown function (DUF1697); Region: DUF1697; pfam08002 880070012079 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 880070012080 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 880070012081 substrate binding pocket [chemical binding]; other site 880070012082 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 880070012083 S-adenosylmethionine binding site [chemical binding]; other site 880070012084 Protein of unknown function (DUF1569); Region: DUF1569; pfam07606 880070012085 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 880070012086 Methane oxygenase PmoA; Region: PmoA; pfam14100 880070012087 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 880070012088 HEAT repeats; Region: HEAT_2; pfam13646 880070012089 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 880070012090 Cytochrome c; Region: Cytochrom_C; pfam00034 880070012091 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 880070012092 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 880070012093 putative active site [active] 880070012094 putative metal binding site [ion binding]; other site 880070012095 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 880070012096 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 880070012097 Protein of unknown function (DUF3098); Region: DUF3098; pfam11297 880070012098 Bacitracin resistance protein BacA; Region: BacA; pfam02673 880070012099 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 880070012100 tRNA pseudouridine(55) synthase; Region: TruB; TIGR00431 880070012101 RNA binding site [nucleotide binding]; other site 880070012102 active site 880070012103 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 880070012104 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 880070012105 active site 880070012106 Riboflavin kinase; Region: Flavokinase; pfam01687 880070012107 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 880070012108 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 880070012109 gliding motility-associated protein GldC; Region: GldC; TIGR03515 880070012110 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070012111 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070012112 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 880070012113 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 880070012114 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 880070012115 Ligand binding site; other site 880070012116 metal-binding site 880070012117 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 880070012118 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 880070012119 active site 880070012120 trimer interface [polypeptide binding]; other site 880070012121 allosteric site; other site 880070012122 active site lid [active] 880070012123 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4299 880070012124 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 880070012125 GAF domain; Region: GAF_2; pfam13185 880070012126 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 880070012127 RNA methyltransferase, RsmE family; Region: TIGR00046 880070012128 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 880070012129 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 880070012130 Ligand binding site; other site 880070012131 oligomer interface; other site 880070012132 Predicted acyl esterases [General function prediction only]; Region: COG2936 880070012133 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 880070012134 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 880070012135 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 880070012136 Ferritin-like domain; Region: Ferritin; pfam00210 880070012137 ferroxidase diiron center [ion binding]; other site 880070012138 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 880070012139 Isochorismatase family; Region: Isochorismatase; pfam00857 880070012140 catalytic triad [active] 880070012141 metal binding site [ion binding]; metal-binding site 880070012142 conserved cis-peptide bond; other site 880070012143 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 880070012144 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 880070012145 active site 880070012146 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 880070012147 EamA-like transporter family; Region: EamA; pfam00892 880070012148 EamA-like transporter family; Region: EamA; pfam00892 880070012149 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 880070012150 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 880070012151 catalytic triad [active] 880070012152 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 880070012153 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 880070012154 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 880070012155 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 880070012156 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 880070012157 inhibitor-cofactor binding pocket; inhibition site 880070012158 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880070012159 catalytic residue [active] 880070012160 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; cl17836 880070012161 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 880070012162 DNA-binding site [nucleotide binding]; DNA binding site 880070012163 RNA-binding motif; other site 880070012164 Acetyl esterase (deacetylase) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3458 880070012165 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 880070012166 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 880070012167 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cd00249 880070012168 dimerization interface [polypeptide binding]; other site 880070012169 putative active cleft [active] 880070012170 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 880070012171 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 880070012172 putative substrate translocation pore; other site 880070012173 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 880070012174 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 880070012175 o-succinylbenzoate synthase; Region: menC_gamma/gm+; TIGR01927 880070012176 active site 880070012177 Queuosine biosynthesis protein; Region: Queuosine_synth; pfam02547 880070012178 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 880070012179 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 880070012180 Predicted esterase [General function prediction only]; Region: COG0627 880070012181 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4947 880070012182 Secretin and TonB N terminus short domain; Region: STN; smart00965 880070012183 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070012184 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 880070012185 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 880070012186 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 880070012187 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070012188 Sulfatase; Region: Sulfatase; cl17466 880070012189 Domain of unknown function (DUF4407); Region: DUF4407; pfam14362 880070012190 Members of the SGNH-hydrolase superfamily, 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_like_7; cd04502 880070012191 active site 880070012192 catalytic triad [active] 880070012193 oxyanion hole [active] 880070012194 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 880070012195 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 880070012196 homodimer interface [polypeptide binding]; other site 880070012197 substrate-cofactor binding pocket; other site 880070012198 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880070012199 catalytic residue [active] 880070012200 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 880070012201 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 880070012202 HlyD family secretion protein; Region: HlyD_3; pfam13437 880070012203 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 880070012204 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 880070012205 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cd00449 880070012206 homodimer interface [polypeptide binding]; other site 880070012207 substrate-cofactor binding pocket; other site 880070012208 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880070012209 catalytic residue [active] 880070012210 thymidylate synthase; Reviewed; Region: thyA; PRK01827 880070012211 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 880070012212 dimerization interface [polypeptide binding]; other site 880070012213 active site 880070012214 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 880070012215 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 880070012216 NAD binding site [chemical binding]; other site 880070012217 substrate binding site [chemical binding]; other site 880070012218 homodimer interface [polypeptide binding]; other site 880070012219 active site 880070012220 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 880070012221 AAA domain; Region: AAA_31; pfam13614 880070012222 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 880070012223 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 880070012224 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 880070012225 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 880070012226 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 880070012227 putative ADP-binding pocket [chemical binding]; other site 880070012228 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; cl00509 880070012229 active site 2 [active] 880070012230 active site 1 [active] 880070012231 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 880070012232 starch binding outer membrane protein SusD; Region: SusD; cl17845 880070012233 SusD family; Region: SusD; pfam07980 880070012234 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070012235 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070012236 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070012237 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 880070012238 HEAT repeats; Region: HEAT_2; pfam13646 880070012239 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 880070012240 Cytochrome c; Region: Cytochrom_C; pfam00034 880070012241 Protein of unknown function (DUF1264); Region: DUF1264; pfam06884 880070012242 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 880070012243 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880070012244 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 880070012245 NAD(P) binding site [chemical binding]; other site 880070012246 active site 880070012247 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 880070012248 fructuronate transporter; Provisional; Region: PRK10034; cl15264 880070012249 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 880070012250 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 880070012251 active site 880070012252 Domain of unknown function (DUF4263); Region: DUF4263; pfam14082 880070012253 Family description; Region: DsbD_2; pfam13386 880070012254 FixH; Region: FixH; pfam05751 880070012255 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 880070012256 4Fe-4S binding domain; Region: Fer4_5; pfam12801 880070012257 Protein of unknown function (DUF1453); Region: DUF1453; cl02009 880070012258 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 880070012259 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 880070012260 Cytochrome c; Region: Cytochrom_C; pfam00034 880070012261 putative bifunctional cbb3-type cytochrome c oxidase subunit I/II; Provisional; Region: PRK14485 880070012262 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 880070012263 Low-spin heme binding site [chemical binding]; other site 880070012264 Putative water exit pathway; other site 880070012265 Binuclear center (active site) [active] 880070012266 Putative proton exit pathway; other site 880070012267 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 880070012268 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 880070012269 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 880070012270 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 880070012271 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 880070012272 metal-binding site [ion binding] 880070012273 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 880070012274 Soluble P-type ATPase [General function prediction only]; Region: COG4087 880070012275 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070012276 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070012277 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070012278 starch binding outer membrane protein SusD; Region: SusD; cl17845 880070012279 SusD family; Region: SusD; pfam07980 880070012280 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 880070012281 Protein of unknown function, DUF399; Region: DUF399; pfam04187 880070012282 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 880070012283 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 880070012284 non-specific DNA binding site [nucleotide binding]; other site 880070012285 salt bridge; other site 880070012286 sequence-specific DNA binding site [nucleotide binding]; other site 880070012287 Glycerophosphodiester phosphodiesterase domain of Agrobacterium tumefaciens and similar proteins; Region: GDPD_AtGDE_like; cd08566 880070012288 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 880070012289 putative active site [active] 880070012290 catalytic site [active] 880070012291 putative metal binding site [ion binding]; other site 880070012292 oligomer interface [polypeptide binding]; other site 880070012293 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 880070012294 Uncharacterized protein conserved in bacteria (DUF2200); Region: DUF2200; pfam09966 880070012295 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 880070012296 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 880070012297 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 880070012298 S-adenosylmethionine binding site [chemical binding]; other site 880070012299 Methyltransferase domain; Region: Methyltransf_23; pfam13489 880070012300 Transposase IS200 like; Region: Y1_Tnp; pfam01797 880070012301 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 880070012302 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 880070012303 active site 880070012304 PHP Thumb interface [polypeptide binding]; other site 880070012305 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 880070012306 generic binding surface I; other site 880070012307 generic binding surface II; other site 880070012308 Planctomycete cytochrome C; Region: PSCyt1; pfam07635 880070012309 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 880070012310 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 880070012311 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 880070012312 Planctomycete cytochrome C; Region: PSCyt1; pfam07635 880070012313 Protein of unknown function (DUF1549); Region: PSCyt2; pfam07583 880070012314 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 880070012315 Protein of unknown function (DUF1553); Region: PSD1; pfam07587 880070012316 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 880070012317 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 880070012318 active site 880070012319 metal binding site [ion binding]; metal-binding site 880070012320 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 880070012321 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 880070012322 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 880070012323 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 880070012324 Na binding site [ion binding]; other site 880070012325 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: PRK12745 880070012326 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880070012327 NAD(P) binding site [chemical binding]; other site 880070012328 active site 880070012329 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 880070012330 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 880070012331 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 880070012332 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 880070012333 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; cl12060 880070012334 DNA interaction; other site 880070012335 Metal-binding active site; metal-binding site 880070012336 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 880070012337 Helix-turn-helix domain; Region: HTH_18; pfam12833 880070012338 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 880070012339 Protein of unknown function (DUF3078); Region: DUF3078; pfam11276 880070012340 Domain of unknown function (DUF202); Region: DUF202; pfam02656 880070012341 polyphosphate kinase; Provisional; Region: PRK05443 880070012342 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 880070012343 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 880070012344 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 880070012345 putative domain interface [polypeptide binding]; other site 880070012346 putative active site [active] 880070012347 catalytic site [active] 880070012348 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 880070012349 putative domain interface [polypeptide binding]; other site 880070012350 putative active site [active] 880070012351 catalytic site [active] 880070012352 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 880070012353 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 880070012354 ATP binding site [chemical binding]; other site 880070012355 Mg2+ binding site [ion binding]; other site 880070012356 G-X-G motif; other site 880070012357 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 880070012358 anchoring element; other site 880070012359 dimer interface [polypeptide binding]; other site 880070012360 ATP binding site [chemical binding]; other site 880070012361 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 880070012362 active site 880070012363 putative metal-binding site [ion binding]; other site 880070012364 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 880070012365 CoA binding domain; Region: CoA_binding_2; pfam13380 880070012366 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 880070012367 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 880070012368 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 880070012369 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 880070012370 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 880070012371 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 880070012372 active site 880070012373 HIGH motif; other site 880070012374 dimer interface [polypeptide binding]; other site 880070012375 KMSKS motif; other site 880070012376 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 880070012377 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 880070012378 active site 880070012379 substrate binding site [chemical binding]; other site 880070012380 metal binding site [ion binding]; metal-binding site 880070012381 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; pfam09912 880070012382 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 880070012383 AMP binding site [chemical binding]; other site 880070012384 active site 880070012385 acyl-activating enzyme (AAE) consensus motif; other site 880070012386 CoA binding site [chemical binding]; other site 880070012387 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 880070012388 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 880070012389 substrate binding site [chemical binding]; other site 880070012390 oxyanion hole (OAH) forming residues; other site 880070012391 trimer interface [polypeptide binding]; other site 880070012392 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 880070012393 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 880070012394 active site 880070012395 substrate-binding site [chemical binding]; other site 880070012396 metal-binding site [ion binding] 880070012397 ATP binding site [chemical binding]; other site 880070012398 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 880070012399 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 880070012400 CCC1-related family of proteins; Region: CCC1_like; cl00278 880070012401 hydroperoxidase II; Provisional; Region: katE; PRK11249 880070012402 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 880070012403 tetramer interface [polypeptide binding]; other site 880070012404 heme binding pocket [chemical binding]; other site 880070012405 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 880070012406 domain interactions; other site 880070012407 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 880070012408 Eukaryotic DNA topoisomerase I, catalytic core; Region: Topoisom_I; pfam01028 880070012409 active site 880070012410 DNA binding site [nucleotide binding] 880070012411 Int/Topo IB signature motif; other site 880070012412 Protein of unknown function (DUF808); Region: DUF808; cl01002 880070012413 Predicted membrane protein [Function unknown]; Region: COG2323 880070012414 Domain of unknown function (DUF2383); Region: DUF2383; pfam09537 880070012415 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 880070012416 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 880070012417 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 880070012418 putative active site [active] 880070012419 heme pocket [chemical binding]; other site 880070012420 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 880070012421 dimer interface [polypeptide binding]; other site 880070012422 phosphorylation site [posttranslational modification] 880070012423 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 880070012424 ATP binding site [chemical binding]; other site 880070012425 Mg2+ binding site [ion binding]; other site 880070012426 G-X-G motif; other site 880070012427 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 880070012428 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 880070012429 active site 880070012430 phosphorylation site [posttranslational modification] 880070012431 intermolecular recognition site; other site 880070012432 dimerization interface [polypeptide binding]; other site 880070012433 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 880070012434 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 880070012435 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 880070012436 Response regulator receiver domain; Region: Response_reg; pfam00072 880070012437 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 880070012438 active site 880070012439 phosphorylation site [posttranslational modification] 880070012440 intermolecular recognition site; other site 880070012441 dimerization interface [polypeptide binding]; other site 880070012442 Helix-turn-helix domain; Region: HTH_18; pfam12833 880070012443 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 880070012444 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 880070012445 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 880070012446 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 880070012447 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 880070012448 active site 880070012449 catalytic triad [active] 880070012450 oxyanion hole [active] 880070012451 Sulfatase; Region: Sulfatase; cl17466 880070012452 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; cl00509 880070012453 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 880070012454 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 880070012455 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 880070012456 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 880070012457 HlyD family secretion protein; Region: HlyD_3; pfam13437 880070012458 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 880070012459 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 880070012460 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 880070012461 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 880070012462 starch binding outer membrane protein SusD; Region: SusD; cl17845 880070012463 starch binding outer membrane protein SusD; Region: SusD; cl17845 880070012464 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070012465 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070012466 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070012467 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 880070012468 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 880070012469 FecR protein; Region: FecR; pfam04773 880070012470 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 880070012471 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880070012472 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 880070012473 DNA binding residues [nucleotide binding] 880070012474 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 880070012475 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880070012476 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 880070012477 DNA binding residues [nucleotide binding] 880070012478 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 880070012479 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 880070012480 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 880070012481 active site 880070012482 FMN binding site [chemical binding]; other site 880070012483 substrate binding site [chemical binding]; other site 880070012484 3Fe-4S cluster binding site [ion binding]; other site 880070012485 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880070012486 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 880070012487 NAD(P) binding site [chemical binding]; other site 880070012488 active site 880070012489 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 880070012490 dUTPase; Provisional; Region: PHA03128 880070012491 Domain of unknown function (DUF1200); Region: DUF1200; pfam06713 880070012492 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 880070012493 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 880070012494 PAS domain; Region: PAS_9; pfam13426 880070012495 putative active site [active] 880070012496 heme pocket [chemical binding]; other site 880070012497 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 880070012498 dimer interface [polypeptide binding]; other site 880070012499 phosphorylation site [posttranslational modification] 880070012500 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 880070012501 ATP binding site [chemical binding]; other site 880070012502 Mg2+ binding site [ion binding]; other site 880070012503 G-X-G motif; other site 880070012504 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 880070012505 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 880070012506 Carbohydrate Binding Module 6 (CBM6); appended to several carbohydrate binding enzymes, including several glycoside hydrolase (GH) family 26 mannanase domains; Region: CBM6_mannanase-like; cd04086 880070012507 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070012508 Sulfatase; Region: Sulfatase; pfam00884 880070012509 Carbohydrate Binding Module 6 (CBM6); appended to several carbohydrate binding enzymes, including several glycoside hydrolase (GH) family 26 mannanase domains; Region: CBM6_mannanase-like; cd04086 880070012510 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 880070012511 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 880070012512 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880070012513 Sulfatase; Region: Sulfatase; pfam00884 880070012514 starch binding outer membrane protein SusD; Region: SusD; cd08977 880070012515 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 880070012516 SusD family; Region: SusD; pfam07980 880070012517 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070012518 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070012519 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880070012520 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 880070012521 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 880070012522 FecR protein; Region: FecR; pfam04773 880070012523 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 880070012524 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 880070012525 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880070012526 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 880070012527 DNA binding residues [nucleotide binding] 880070012528 Cupin domain; Region: Cupin_2; pfam07883 880070012529 CESA_like_1 is a member of the cellulose synthase (CESA) superfamily; Region: CESA_like_1; cd06439 880070012530 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 880070012531 DXD motif; other site 880070012532 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 880070012533 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 880070012534 putative active site [active] 880070012535 heme pocket [chemical binding]; other site 880070012536 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 880070012537 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 880070012538 putative active site [active] 880070012539 heme pocket [chemical binding]; other site 880070012540 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 880070012541 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 880070012542 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 880070012543 dimer interface [polypeptide binding]; other site 880070012544 phosphorylation site [posttranslational modification] 880070012545 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 880070012546 ATP binding site [chemical binding]; other site 880070012547 Mg2+ binding site [ion binding]; other site 880070012548 G-X-G motif; other site 880070012549 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 880070012550 active site 880070012551 phosphorylation site [posttranslational modification] 880070012552 intermolecular recognition site; other site 880070012553 dimerization interface [polypeptide binding]; other site 880070012554 Response regulator receiver domain; Region: Response_reg; pfam00072 880070012555 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 880070012556 active site 880070012557 phosphorylation site [posttranslational modification] 880070012558 intermolecular recognition site; other site 880070012559 dimerization interface [polypeptide binding]; other site 880070012560 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 880070012561 putative binding surface; other site 880070012562 active site 880070012563 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 880070012564 active site 880070012565 phosphorylation site [posttranslational modification] 880070012566 intermolecular recognition site; other site 880070012567 dimerization interface [polypeptide binding]; other site 880070012568 LytTr DNA-binding domain; Region: LytTR; smart00850 880070012569 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 880070012570 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 880070012571 trimer interface [polypeptide binding]; other site 880070012572 active site 880070012573 substrate binding site [chemical binding]; other site 880070012574 CoA binding site [chemical binding]; other site 880070012575 Outer membrane efflux protein; Region: OEP; pfam02321 880070012576 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 880070012577 Chain length determinant protein; Region: Wzz; cl15801 880070012578 O-Antigen ligase; Region: Wzy_C; cl04850 880070012579 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 880070012580 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 880070012581 Probable Catalytic site; other site 880070012582 metal-binding site 880070012583 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 880070012584 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 880070012585 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 880070012586 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 880070012587 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 880070012588 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 880070012589 active site 880070012590 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 880070012591 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: GT1_like_1; cd04950 880070012592 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 880070012593 putative homodimer interface [polypeptide binding]; other site 880070012594 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 880070012595 Response regulator receiver domain; Region: Response_reg; pfam00072 880070012596 active site 880070012597 phosphorylation site [posttranslational modification] 880070012598 intermolecular recognition site; other site 880070012599 dimerization interface [polypeptide binding]; other site 880070012600 Bacterial sugar transferase; Region: Bac_transf; cl00939 880070012601 Bacterial sugar transferase; Region: Bac_transf; pfam02397 880070012602 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 880070012603 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 880070012604 active site 880070012605 phosphorylation site [posttranslational modification] 880070012606 intermolecular recognition site; other site 880070012607 dimerization interface [polypeptide binding]; other site 880070012608 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 880070012609 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 880070012610 NAD binding site [chemical binding]; other site 880070012611 putative substrate binding site 2 [chemical binding]; other site 880070012612 putative substrate binding site 1 [chemical binding]; other site 880070012613 active site 880070012614 NIPSNAP; Region: NIPSNAP; pfam07978 880070012615 NIPSNAP; Region: NIPSNAP; pfam07978 880070012616 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 880070012617 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 880070012618 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 880070012619 active site 880070012620 intersubunit interface [polypeptide binding]; other site 880070012621 zinc binding site [ion binding]; other site 880070012622 Na+ binding site [ion binding]; other site 880070012623 Abhydrolase family; Region: Abhydrolase_7; pfam12715 880070012624 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 880070012625 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; cl12060 880070012626 Acetyl esterase (deacetylase) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3458 880070012627 PhoPQ-activated pathogenicity-related protein; Region: PhoPQ_related; cl01750 880070012628 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 880070012629 altronate oxidoreductase; Provisional; Region: PRK03643 880070012630 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 880070012631 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 880070012632 xylose isomerase; Provisional; Region: PRK05474 880070012633 xylose isomerase; Region: xylose_isom_A; TIGR02630 880070012634 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 880070012635 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 880070012636 nucleotide binding site [chemical binding]; other site 880070012637 Vibrio parahaemolyticus Na(+)/galactose cotransporter (vSGLT) and related proteins; solute binding domain; Region: SLC5sbd_vSGLT; cd10325 880070012638 Na binding site [ion binding]; other site 880070012639 substrate binding site [chemical binding]; other site 880070012640 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 880070012641 Uncharacterized conserved protein [Function unknown]; Region: COG5476 880070012642 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 880070012643 MlrC C-terminus; Region: MlrC_C; pfam07171 880070012644 Beta-lactamase; Region: Beta-lactamase; pfam00144 880070012645 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 880070012646 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 880070012647 ABC1 family; Region: ABC1; cl17513 880070012648 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 880070012649 active site 880070012650 ATP binding site [chemical binding]; other site 880070012651 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 880070012652 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 880070012653 PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal)...; Region: PDZ_signaling; cd00992 880070012654 C-terminal processing peptidase-like; serine protease family S41; Region: Peptidase_S41_CPP_like; cd07561 880070012655 Catalytic dyad [active] 880070012656 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 880070012657 starch binding outer membrane protein SusD; Region: SusD; cd08977 880070012658 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880070012659 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880070012660 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 880070012661 FecR protein; Region: FecR; pfam04773 880070012662 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 880070012663 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 880070012664 DNA binding residues [nucleotide binding] 880070012665 Fatty acid desaturase; Region: FA_desaturase; pfam00487 880070012666 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 880070012667 Di-iron ligands [ion binding]; other site 880070012668 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 880070012669 Penicillinase repressor; Region: Pencillinase_R; pfam03965 880070012670 probable UDP-glucose 6-dehydrogenase; Region: PLN02353 880070012671 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 880070012672 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 880070012673 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 880070012674 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 880070012675 active site 880070012676 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 880070012677 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 880070012678 CysD dimerization site [polypeptide binding]; other site 880070012679 G1 box; other site 880070012680 putative GEF interaction site [polypeptide binding]; other site 880070012681 GTP/Mg2+ binding site [chemical binding]; other site 880070012682 Switch I region; other site 880070012683 G2 box; other site 880070012684 G3 box; other site 880070012685 Switch II region; other site 880070012686 G4 box; other site 880070012687 G5 box; other site 880070012688 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 880070012689 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 880070012690 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 880070012691 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 880070012692 Active Sites [active] 880070012693 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 880070012694 ligand-binding site [chemical binding]; other site 880070012695 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 880070012696 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 880070012697 TrkA-C domain; Region: TrkA_C; pfam02080 880070012698 TrkA-C domain; Region: TrkA_C; pfam02080 880070012699 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 880070012700 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 880070012701 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 880070012702 active site 880070012703 metal binding site [ion binding]; metal-binding site 880070012704 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 880070012705 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 880070012706 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 880070012707 active site 880070012708 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 880070012709 CAAX protease self-immunity; Region: Abi; pfam02517 880070012710 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 880070012711 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 880070012712 Domain of unknown function (DUF389); Region: DUF389; pfam04087