-- dump date 20140619_094205 -- class Genbank::misc_feature -- table misc_feature_note -- id note 880071000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 880071000002 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 880071000003 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 880071000004 Walker A motif; other site 880071000005 ATP binding site [chemical binding]; other site 880071000006 Walker B motif; other site 880071000007 arginine finger; other site 880071000008 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 880071000009 DnaA box-binding interface [nucleotide binding]; other site 880071000010 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 880071000011 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 880071000012 ligand binding site [chemical binding]; other site 880071000013 flexible hinge region; other site 880071000014 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 880071000015 active site 880071000016 metal binding site [ion binding]; metal-binding site 880071000017 Predicted permeases [General function prediction only]; Region: COG0795 880071000018 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 880071000019 Integrase core domain; Region: rve; pfam00665 880071000020 DDE domain; Region: DDE_Tnp_IS240; pfam13610 880071000021 Integrase core domain; Region: rve_3; pfam13683 880071000022 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 880071000023 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 880071000024 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 880071000025 Ligand Binding Site [chemical binding]; other site 880071000026 TilS substrate C-terminal domain; Region: TilS_C; smart00977 880071000027 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 880071000028 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 880071000029 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 880071000030 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 880071000031 hydroxyglutarate oxidase; Provisional; Region: PRK11728 880071000032 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 880071000033 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 880071000034 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 880071000035 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cd09634 880071000036 Protein of unknown function (DUF805); Region: DUF805; pfam05656 880071000037 GAF domain; Region: GAF; pfam01590 880071000038 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 880071000039 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 880071000040 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 880071000041 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880071000042 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 880071000043 dimer interface [polypeptide binding]; other site 880071000044 phosphorylation site [posttranslational modification] 880071000045 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 880071000046 ATP binding site [chemical binding]; other site 880071000047 Mg2+ binding site [ion binding]; other site 880071000048 G-X-G motif; other site 880071000049 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 880071000050 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 880071000051 putative ribose interaction site [chemical binding]; other site 880071000052 putative ADP binding site [chemical binding]; other site 880071000053 PrcB C-terminal; Region: PrcB_C; pfam14343 880071000054 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 880071000055 CRISPR associated protein Cas6; Region: Cas_Cas6; pfam01881 880071000056 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 880071000057 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_4; cd07822 880071000058 putative hydrophobic ligand binding site [chemical binding]; other site 880071000059 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 880071000060 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 880071000061 putative active site [active] 880071000062 catalytic triad [active] 880071000063 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 880071000064 binding surface 880071000065 TPR motif; other site 880071000066 TPR repeat; Region: TPR_11; pfam13414 880071000067 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 880071000068 binding surface 880071000069 TPR motif; other site 880071000070 TPR repeat; Region: TPR_11; pfam13414 880071000071 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 880071000072 binding surface 880071000073 TPR repeat; Region: TPR_11; pfam13414 880071000074 TPR motif; other site 880071000075 TPR repeat; Region: TPR_11; pfam13414 880071000076 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 880071000077 binding surface 880071000078 TPR motif; other site 880071000079 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 880071000080 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 880071000081 Walker A/P-loop; other site 880071000082 ATP binding site [chemical binding]; other site 880071000083 Q-loop/lid; other site 880071000084 ABC transporter signature motif; other site 880071000085 Walker B; other site 880071000086 D-loop; other site 880071000087 H-loop/switch region; other site 880071000088 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 880071000089 Penicillinase repressor; Region: Pencillinase_R; pfam03965 880071000090 multidrug efflux protein; Reviewed; Region: PRK01766 880071000091 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 880071000092 cation binding site [ion binding]; other site 880071000093 bacillithiol biosynthesis deacetylase BshB1; Region: thiol_BshB1; TIGR04001 880071000094 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 880071000095 gliding motility-associated lipoprotein GldJ; Region: GldJ; TIGR03524 880071000096 gliding motility-associated lipoprotein GldJ; Region: GldJ; TIGR03524 880071000097 gliding motility-associated lipoprotein GldJ; Region: GldJ; TIGR03524 880071000098 Starch synthase catalytic domain; Region: Glyco_transf_5; pfam08323 880071000099 Domain of unknown function (DUF4270); Region: DUF4270; pfam14092 880071000100 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 880071000101 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 880071000102 glutaminase active site [active] 880071000103 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 880071000104 dimer interface [polypeptide binding]; other site 880071000105 active site 880071000106 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 880071000107 dimer interface [polypeptide binding]; other site 880071000108 active site 880071000109 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 880071000110 Protein of unknown function (DUF1684); Region: DUF1684; pfam07920 880071000111 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 880071000112 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 880071000113 active site 880071000114 substrate-binding site [chemical binding]; other site 880071000115 metal-binding site [ion binding] 880071000116 ATP binding site [chemical binding]; other site 880071000117 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 880071000118 metal-binding site 880071000119 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 880071000120 SLBB domain; Region: SLBB; pfam10531 880071000121 kynureninase; Region: kynureninase; TIGR01814 880071000122 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 880071000123 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 880071000124 catalytic residue [active] 880071000125 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 880071000126 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 880071000127 putative NAD(P) binding site [chemical binding]; other site 880071000128 putative substrate binding site [chemical binding]; other site 880071000129 catalytic Zn binding site [ion binding]; other site 880071000130 structural Zn binding site [ion binding]; other site 880071000131 dimer interface [polypeptide binding]; other site 880071000132 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 880071000133 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 880071000134 quinone interaction residues [chemical binding]; other site 880071000135 active site 880071000136 catalytic residues [active] 880071000137 FMN binding site [chemical binding]; other site 880071000138 substrate binding site [chemical binding]; other site 880071000139 Phage shock protein B; Region: PspB; cl05946 880071000140 Beta-lactamase; Region: Beta-lactamase; pfam00144 880071000141 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 880071000142 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880071000143 Domain of unknown function (DUF2383); Region: DUF2383; pfam09537 880071000144 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 880071000145 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880071000146 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 880071000147 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 880071000148 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 880071000149 ligand binding site [chemical binding]; other site 880071000150 cell surface protein SprA; Region: surface_SprA; TIGR04189 880071000151 Motility related/secretion protein; Region: SprA_N; pfam14349 880071000152 Motility related/secretion protein; Region: SprA_N; pfam14349 880071000153 Motility related/secretion protein; Region: SprA_N; pfam14349 880071000154 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 880071000155 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 880071000156 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 880071000157 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 880071000158 putative active site [active] 880071000159 putative CoA binding site [chemical binding]; other site 880071000160 nudix motif; other site 880071000161 metal binding site [ion binding]; metal-binding site 880071000162 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 880071000163 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 880071000164 putative active site; other site 880071000165 catalytic triad [active] 880071000166 putative dimer interface [polypeptide binding]; other site 880071000167 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 880071000168 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 880071000169 Ligand binding site; other site 880071000170 Putative Catalytic site; other site 880071000171 DXD motif; other site 880071000172 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 880071000173 Shikimate kinase; Region: SKI; pfam01202 880071000174 ADP binding site [chemical binding]; other site 880071000175 magnesium binding site [ion binding]; other site 880071000176 putative shikimate binding site; other site 880071000177 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 880071000178 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 880071000179 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 880071000180 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 880071000181 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 880071000182 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 880071000183 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 880071000184 active site 880071000185 putative DNA-binding cleft [nucleotide binding]; other site 880071000186 dimer interface [polypeptide binding]; other site 880071000187 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 880071000188 AIR carboxylase; Region: AIRC; pfam00731 880071000189 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 880071000190 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 880071000191 conserved hypothetical protein; Region: TIGR02231 880071000192 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 880071000193 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 880071000194 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 880071000195 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 880071000196 FtsX-like permease family; Region: FtsX; pfam02687 880071000197 Sporulation related domain; Region: SPOR; cl10051 880071000198 Ribokinase-like subgroup C. Found only in bacteria, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_C; cd01946 880071000199 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 880071000200 substrate binding site [chemical binding]; other site 880071000201 ATP binding site [chemical binding]; other site 880071000202 Predicted metalloprotease [General function prediction only]; Region: COG2321 880071000203 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 880071000204 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880071000205 Interphotoreceptor retinoid-binding protein; serine protease family S41; Region: Peptidase_S41_IRBP; cd07563 880071000206 active site triad [active] 880071000207 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 880071000208 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 880071000209 putative tRNA-binding site [nucleotide binding]; other site 880071000210 B3/4 domain; Region: B3_4; pfam03483 880071000211 tRNA synthetase B5 domain; Region: B5; pfam03484 880071000212 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 880071000213 dimer interface [polypeptide binding]; other site 880071000214 motif 1; other site 880071000215 motif 3; other site 880071000216 motif 2; other site 880071000217 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 880071000218 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 880071000219 active site 880071000220 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 880071000221 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 880071000222 tetramer interface [polypeptide binding]; other site 880071000223 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880071000224 catalytic residue [active] 880071000225 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 880071000226 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 880071000227 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 880071000228 homodimer interface [polypeptide binding]; other site 880071000229 substrate-cofactor binding pocket; other site 880071000230 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880071000231 catalytic residue [active] 880071000232 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 880071000233 E3 interaction surface; other site 880071000234 lipoyl attachment site [posttranslational modification]; other site 880071000235 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 880071000236 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 880071000237 E3 interaction surface; other site 880071000238 lipoyl attachment site [posttranslational modification]; other site 880071000239 e3 binding domain; Region: E3_binding; pfam02817 880071000240 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 880071000241 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 880071000242 binding surface 880071000243 Tetratricopeptide repeat; Region: TPR_16; pfam13432 880071000244 TPR motif; other site 880071000245 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880071000246 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 880071000247 cyclase homology domain; Region: CHD; cd07302 880071000248 nucleotidyl binding site; other site 880071000249 metal binding site [ion binding]; metal-binding site 880071000250 dimer interface [polypeptide binding]; other site 880071000251 Heme NO binding associated; Region: HNOBA; pfam07701 880071000252 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 880071000253 cyclase homology domain; Region: CHD; cd07302 880071000254 nucleotidyl binding site; other site 880071000255 metal binding site [ion binding]; metal-binding site 880071000256 dimer interface [polypeptide binding]; other site 880071000257 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 880071000258 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 880071000259 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 880071000260 ligand binding site [chemical binding]; other site 880071000261 flexible hinge region; other site 880071000262 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 880071000263 Transposase IS200 like; Region: Y1_Tnp; cl00848 880071000264 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 880071000265 putative catalytic residues [active] 880071000266 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 880071000267 non-specific DNA binding site [nucleotide binding]; other site 880071000268 salt bridge; other site 880071000269 sequence-specific DNA binding site [nucleotide binding]; other site 880071000270 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4295 880071000271 Uncharacterized protein conserved in bacteria (DUF2263); Region: DUF2263; pfam10021 880071000272 Methyltransferase domain; Region: Methyltransf_31; pfam13847 880071000273 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 880071000274 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 880071000275 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 880071000276 homodimer interface [polypeptide binding]; other site 880071000277 substrate-cofactor binding pocket; other site 880071000278 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880071000279 catalytic residue [active] 880071000280 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 880071000281 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 880071000282 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880071000283 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 880071000284 non-specific DNA binding site [nucleotide binding]; other site 880071000285 salt bridge; other site 880071000286 sequence-specific DNA binding site [nucleotide binding]; other site 880071000287 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 880071000288 TIGR01777 family protein; Region: yfcH 880071000289 putative NAD(P) binding site [chemical binding]; other site 880071000290 putative active site [active] 880071000291 Uncharacterized protein conserved in bacteria (DUF2263); Region: DUF2263; pfam10021 880071000292 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 880071000293 Mechanosensitive ion channel; Region: MS_channel; pfam00924 880071000294 NAD-dependent deacetylase; Provisional; Region: PRK00481 880071000295 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 880071000296 NAD+ binding site [chemical binding]; other site 880071000297 substrate binding site [chemical binding]; other site 880071000298 Zn binding site [ion binding]; other site 880071000299 pyruvate dehydrogenase subunit beta; Validated; Region: PRK09212 880071000300 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 880071000301 alpha subunit interface [polypeptide binding]; other site 880071000302 TPP binding site [chemical binding]; other site 880071000303 heterodimer interface [polypeptide binding]; other site 880071000304 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 880071000305 Transposase IS200 like; Region: Y1_Tnp; cl00848 880071000306 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 880071000307 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 880071000308 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 880071000309 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 880071000310 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 880071000311 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 880071000312 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 880071000313 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 880071000314 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 880071000315 PKD domain; Region: PKD; pfam00801 880071000316 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; cl17457 880071000317 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 880071000318 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 880071000319 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 880071000320 active site 880071000321 catalytic site [active] 880071000322 substrate binding site [chemical binding]; other site 880071000323 Probable transposase; Region: OrfB_IS605; pfam01385 880071000324 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 880071000325 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 880071000326 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 880071000327 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 880071000328 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 880071000329 HsdM N-terminal domain; Region: HsdM_N; pfam12161 880071000330 Methyltransferase domain; Region: Methyltransf_26; pfam13659 880071000331 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 880071000332 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 880071000333 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 880071000334 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 880071000335 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 880071000336 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 880071000337 ATP binding site [chemical binding]; other site 880071000338 putative Mg++ binding site [ion binding]; other site 880071000339 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 880071000340 substrate binding site [chemical binding]; other site 880071000341 multimerization interface [polypeptide binding]; other site 880071000342 ATP binding site [chemical binding]; other site 880071000343 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 880071000344 thiamine phosphate binding site [chemical binding]; other site 880071000345 active site 880071000346 pyrophosphate binding site [ion binding]; other site 880071000347 Putative transcription activator [Transcription]; Region: TenA; COG0819 880071000348 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 880071000349 substrate binding site [chemical binding]; other site 880071000350 dimer interface [polypeptide binding]; other site 880071000351 ATP binding site [chemical binding]; other site 880071000352 Transposase IS200 like; Region: Y1_Tnp; cl00848 880071000353 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 880071000354 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 880071000355 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 880071000356 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cd00719 880071000357 active site 880071000358 GIY-YIG motif/motif A; other site 880071000359 catalytic site [active] 880071000360 metal binding site [ion binding]; metal-binding site 880071000361 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 880071000362 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 880071000363 active sites [active] 880071000364 tetramer interface [polypeptide binding]; other site 880071000365 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 880071000366 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 880071000367 FtsX-like permease family; Region: FtsX; pfam02687 880071000368 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880071000369 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880071000370 HYR domain; Region: HYR; pfam02494 880071000371 HYR domain; Region: HYR; pfam02494 880071000372 HYR domain; Region: HYR; pfam02494 880071000373 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 880071000374 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 880071000375 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880071000376 Walker A/P-loop; other site 880071000377 ATP binding site [chemical binding]; other site 880071000378 Q-loop/lid; other site 880071000379 ABC transporter signature motif; other site 880071000380 Walker B; other site 880071000381 D-loop; other site 880071000382 H-loop/switch region; other site 880071000383 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 880071000384 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880071000385 Walker A/P-loop; other site 880071000386 ATP binding site [chemical binding]; other site 880071000387 Q-loop/lid; other site 880071000388 ABC transporter signature motif; other site 880071000389 Walker B; other site 880071000390 D-loop; other site 880071000391 H-loop/switch region; other site 880071000392 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 880071000393 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 880071000394 Two component regulator propeller; Region: Reg_prop; pfam07494 880071000395 Two component regulator propeller; Region: Reg_prop; pfam07494 880071000396 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 880071000397 GAF domain; Region: GAF_2; pfam13185 880071000398 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 880071000399 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880071000400 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 880071000401 Two component regulator propeller; Region: Reg_prop; pfam07494 880071000402 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 880071000403 GAF domain; Region: GAF_2; pfam13185 880071000404 GAF domain; Region: GAF_3; pfam13492 880071000405 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 880071000406 Uncharacterized conserved protein [Function unknown]; Region: COG1739 880071000407 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 880071000408 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 880071000409 imidazolonepropionase; Validated; Region: PRK09356 880071000410 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 880071000411 active site 880071000412 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 880071000413 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 880071000414 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 880071000415 active site 880071000416 catalytic residues [active] 880071000417 DNA binding site [nucleotide binding] 880071000418 Int/Topo IB signature motif; other site 880071000419 gliding motility-associated protein GldM; Region: GldM_gliding; TIGR03517 880071000420 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 880071000421 ATP binding site [chemical binding]; other site 880071000422 active site 880071000423 substrate binding site [chemical binding]; other site 880071000424 Bifunctional nuclease; Region: DNase-RNase; pfam02577 880071000425 UvrB/uvrC motif; Region: UVR; pfam02151 880071000426 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 880071000427 Domain of unknown function DUF21; Region: DUF21; pfam01595 880071000428 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 880071000429 glycyl-tRNA synthetase; Provisional; Region: PRK04173 880071000430 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 880071000431 motif 1; other site 880071000432 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 880071000433 active site 880071000434 motif 2; other site 880071000435 motif 3; other site 880071000436 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 880071000437 anticodon binding site; other site 880071000438 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 880071000439 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 880071000440 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 880071000441 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 880071000442 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 880071000443 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 880071000444 E3 interaction surface; other site 880071000445 lipoyl attachment site [posttranslational modification]; other site 880071000446 e3 binding domain; Region: E3_binding; pfam02817 880071000447 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 880071000448 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 880071000449 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 880071000450 Glutamine amidotransferase class-I; Region: GATase; pfam00117 880071000451 glutamine binding [chemical binding]; other site 880071000452 catalytic triad [active] 880071000453 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 880071000454 bifunctional phosphoglucose/phosphomannose isomerase; Validated; Region: PRK08674 880071000455 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 880071000456 The members of this protein family contain the SIS (Sugar ISomerase) domain and have both the phosphoglucose isomerase (PGI) and the phosphomannose isomerase (PMI) functions. These functions catalyze the reversible reactions of glucose 6-phosphate to...; Region: SIS_PGI_PMI_2; cd05637 880071000457 dimer interface [polypeptide binding]; other site 880071000458 active site 880071000459 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 880071000460 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 880071000461 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 880071000462 putative active site [active] 880071000463 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 880071000464 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 880071000465 inhibitor-cofactor binding pocket; inhibition site 880071000466 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880071000467 catalytic residue [active] 880071000468 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 880071000469 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 880071000470 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cl01298 880071000471 Methyltransferase FkbM domain; Region: Methyltransf_21; pfam05050 880071000472 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 880071000473 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 880071000474 Walker A/P-loop; other site 880071000475 ATP binding site [chemical binding]; other site 880071000476 Q-loop/lid; other site 880071000477 ABC transporter signature motif; other site 880071000478 Walker B; other site 880071000479 D-loop; other site 880071000480 H-loop/switch region; other site 880071000481 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 880071000482 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 880071000483 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 880071000484 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 880071000485 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880071000486 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 880071000487 binding surface 880071000488 TPR motif; other site 880071000489 TPR repeat; Region: TPR_11; pfam13414 880071000490 CHAT domain; Region: CHAT; pfam12770 880071000491 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 880071000492 TPR motif; other site 880071000493 TPR repeat; Region: TPR_11; pfam13414 880071000494 binding surface 880071000495 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 880071000496 binding surface 880071000497 TPR motif; other site 880071000498 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 880071000499 binding surface 880071000500 TPR motif; other site 880071000501 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 880071000502 binding surface 880071000503 TPR motif; other site 880071000504 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880071000505 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 880071000506 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 880071000507 malonyl-CoA binding site [chemical binding]; other site 880071000508 dimer interface [polypeptide binding]; other site 880071000509 active site 880071000510 product binding site; other site 880071000511 HEAT repeats; Region: HEAT_2; pfam13646 880071000512 HEAT repeats; Region: HEAT_2; pfam13646 880071000513 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 880071000514 active site 880071000515 HAMP domain; Region: HAMP; pfam00672 880071000516 dimerization interface [polypeptide binding]; other site 880071000517 GAF domain; Region: GAF_2; pfam13185 880071000518 GAF domain; Region: GAF_3; pfam13492 880071000519 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 880071000520 D-alanine--D-alanine ligase; Region: D_ala_D_alaTIGR; TIGR01205 880071000521 ATP-grasp domain; Region: ATP-grasp_4; cl17255 880071000522 ATP-grasp domain; Region: ATP-grasp_4; cl17255 880071000523 GTPase RsgA; Reviewed; Region: PRK00098 880071000524 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 880071000525 RNA binding site [nucleotide binding]; other site 880071000526 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 880071000527 GTPase/Zn-binding domain interface [polypeptide binding]; other site 880071000528 GTP/Mg2+ binding site [chemical binding]; other site 880071000529 G4 box; other site 880071000530 G5 box; other site 880071000531 G1 box; other site 880071000532 Switch I region; other site 880071000533 G2 box; other site 880071000534 G3 box; other site 880071000535 Switch II region; other site 880071000536 Protein of unknown function (DUF1493); Region: DUF1493; pfam07377 880071000537 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 880071000538 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 880071000539 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 880071000540 homodimer interface [polypeptide binding]; other site 880071000541 substrate-cofactor binding pocket; other site 880071000542 catalytic residue [active] 880071000543 integron integrase; Region: integrase_gron; TIGR02249 880071000544 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 880071000545 Int/Topo IB signature motif; other site 880071000546 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 880071000547 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 880071000548 dimer interface [polypeptide binding]; other site 880071000549 ssDNA binding site [nucleotide binding]; other site 880071000550 tetramer (dimer of dimers) interface [polypeptide binding]; other site 880071000551 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 880071000552 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 880071000553 putative active site [active] 880071000554 putative NTP binding site [chemical binding]; other site 880071000555 putative nucleic acid binding site [nucleotide binding]; other site 880071000556 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 880071000557 putative active site [active] 880071000558 putative NTP binding site [chemical binding]; other site 880071000559 putative nucleic acid binding site [nucleotide binding]; other site 880071000560 AAA ATPase domain; Region: AAA_15; pfam13175 880071000561 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880071000562 Walker A/P-loop; other site 880071000563 ATP binding site [chemical binding]; other site 880071000564 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 880071000565 active site 880071000566 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 880071000567 binding surface 880071000568 Tetratricopeptide repeat; Region: TPR_16; pfam13432 880071000569 TPR motif; other site 880071000570 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 880071000571 TPR motif; other site 880071000572 TPR repeat; Region: TPR_11; pfam13414 880071000573 binding surface 880071000574 tol-pal system protein YbgF; Provisional; Region: PRK10803 880071000575 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 880071000576 TPR repeat; Region: TPR_11; pfam13414 880071000577 binding surface 880071000578 TPR motif; other site 880071000579 von Willebrand factor (vWF) type A domain; Region: VWA; smart00327 880071000580 metal ion-dependent adhesion site (MIDAS); other site 880071000581 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880071000582 Helix-turn-helix domain; Region: HTH_28; pfam13518 880071000583 Catalytic domain of Protein Kinases; Region: PKc; cd00180 880071000584 active site 880071000585 substrate binding site [chemical binding]; other site 880071000586 ATP binding site [chemical binding]; other site 880071000587 activation loop (A-loop); other site 880071000588 AAA domain; Region: AAA_11; pfam13086 880071000589 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 880071000590 ATP binding site [chemical binding]; other site 880071000591 AAA domain; Region: AAA_12; pfam13087 880071000592 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 880071000593 putative active site [active] 880071000594 catalytic site [active] 880071000595 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 880071000596 TPR motif; other site 880071000597 TPR repeat; Region: TPR_11; pfam13414 880071000598 binding surface 880071000599 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_3; cd07820 880071000600 putative hydrophobic ligand binding site [chemical binding]; other site 880071000601 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 880071000602 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 880071000603 S-adenosylmethionine binding site [chemical binding]; other site 880071000604 Chorismate mutase type II; Region: CM_2; smart00830 880071000605 Prephenate dehydratase; Region: PDT; pfam00800 880071000606 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 880071000607 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 880071000608 ATP binding site [chemical binding]; other site 880071000609 Mg2+ binding site [ion binding]; other site 880071000610 G-X-G motif; other site 880071000611 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 880071000612 ATP binding site [chemical binding]; other site 880071000613 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 880071000614 active site 880071000615 putative metal-binding site [ion binding]; other site 880071000616 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 880071000617 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 880071000618 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 880071000619 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 880071000620 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 880071000621 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 880071000622 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 880071000623 isocitrate dehydrogenase; Reviewed; Region: PRK07006 880071000624 isocitrate dehydrogenase; Validated; Region: PRK07362 880071000625 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 880071000626 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 880071000627 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 880071000628 AAA domain; Region: AAA_21; pfam13304 880071000629 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 880071000630 active site 880071000631 metal binding site [ion binding]; metal-binding site 880071000632 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 880071000633 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 880071000634 putative acyl-acceptor binding pocket; other site 880071000635 Domain of unknown function (DUF1877); Region: DUF1877; pfam08974 880071000636 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 880071000637 active site 880071000638 catalytic residues [active] 880071000639 metal binding site [ion binding]; metal-binding site 880071000640 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 880071000641 CoA-transferase family III; Region: CoA_transf_3; pfam02515 880071000642 GAF domain; Region: GAF_2; pfam13185 880071000643 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 880071000644 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880071000645 SCP-2 sterol transfer family; Region: SCP2; pfam02036 880071000646 Integrase core domain; Region: rve; pfam00665 880071000647 DDE domain; Region: DDE_Tnp_IS240; pfam13610 880071000648 Integrase core domain; Region: rve_3; pfam13683 880071000649 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 880071000650 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 880071000651 catalytic residues [active] 880071000652 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 880071000653 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 880071000654 putative active site [active] 880071000655 substrate binding site [chemical binding]; other site 880071000656 putative cosubstrate binding site; other site 880071000657 catalytic site [active] 880071000658 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 880071000659 substrate binding site [chemical binding]; other site 880071000660 Transposase IS200 like; Region: Y1_Tnp; cl00848 880071000661 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 880071000662 Low molecular weight phosphatase family; Region: LMWPc; cl00105 880071000663 active site 880071000664 Response regulator receiver domain; Region: Response_reg; pfam00072 880071000665 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 880071000666 active site 880071000667 phosphorylation site [posttranslational modification] 880071000668 intermolecular recognition site; other site 880071000669 dimerization interface [polypeptide binding]; other site 880071000670 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 880071000671 dimer interface [polypeptide binding]; other site 880071000672 phosphorylation site [posttranslational modification] 880071000673 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 880071000674 ATP binding site [chemical binding]; other site 880071000675 Mg2+ binding site [ion binding]; other site 880071000676 G-X-G motif; other site 880071000677 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 880071000678 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 880071000679 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 880071000680 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 880071000681 RNA methyltransferase, RsmE family; Region: TIGR00046 880071000682 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 880071000683 Transposase IS200 like; Region: Y1_Tnp; cl00848 880071000684 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 880071000685 Predicted amidohydrolase [General function prediction only]; Region: COG0388 880071000686 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 880071000687 putative active site [active] 880071000688 catalytic triad [active] 880071000689 putative dimer interface [polypeptide binding]; other site 880071000690 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 880071000691 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 880071000692 active site 880071000693 interdomain interaction site; other site 880071000694 putative metal-binding site [ion binding]; other site 880071000695 nucleotide binding site [chemical binding]; other site 880071000696 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 880071000697 domain I; other site 880071000698 DNA binding groove [nucleotide binding] 880071000699 phosphate binding site [ion binding]; other site 880071000700 domain II; other site 880071000701 domain III; other site 880071000702 nucleotide binding site [chemical binding]; other site 880071000703 catalytic site [active] 880071000704 domain IV; other site 880071000705 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 880071000706 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 880071000707 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 880071000708 NHAD transporter family protein; Provisional; Region: PLN00137 880071000709 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 880071000710 ligand binding site [chemical binding]; other site 880071000711 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 880071000712 Integral membrane protein TerC family; Region: TerC; cl10468 880071000713 Serine incorporator (Serinc); Region: Serinc; pfam03348 880071000714 phosphodiesterase YaeI; Provisional; Region: PRK11340 880071000715 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 880071000716 putative active site [active] 880071000717 putative metal binding site [ion binding]; other site 880071000718 Domain of unknown function (DUF1736); Region: DUF1736; pfam08409 880071000719 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 880071000720 TPR motif; other site 880071000721 TPR repeat; Region: TPR_11; pfam13414 880071000722 binding surface 880071000723 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 880071000724 binding surface 880071000725 TPR repeat; Region: TPR_11; pfam13414 880071000726 TPR motif; other site 880071000727 Divergent AAA domain; Region: AAA_4; pfam04326 880071000728 PCI domain; Region: PCI; cl02111 880071000729 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 880071000730 active site 880071000731 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 880071000732 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 880071000733 active site 880071000734 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 880071000735 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 880071000736 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 880071000737 anti sigma factor interaction site; other site 880071000738 regulatory phosphorylation site [posttranslational modification]; other site 880071000739 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 880071000740 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 880071000741 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 880071000742 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 880071000743 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 880071000744 23S rRNA binding site [nucleotide binding]; other site 880071000745 L21 binding site [polypeptide binding]; other site 880071000746 L13 binding site [polypeptide binding]; other site 880071000747 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 880071000748 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 880071000749 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 880071000750 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 880071000751 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 880071000752 G1 box; other site 880071000753 putative GEF interaction site [polypeptide binding]; other site 880071000754 GTP/Mg2+ binding site [chemical binding]; other site 880071000755 Switch I region; other site 880071000756 G2 box; other site 880071000757 G3 box; other site 880071000758 Switch II region; other site 880071000759 G4 box; other site 880071000760 G5 box; other site 880071000761 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 880071000762 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 880071000763 OstA-like protein; Region: OstA_2; pfam13100 880071000764 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07666 880071000765 classical (c) SDRs; Region: SDR_c; cd05233 880071000766 NAD(P) binding site [chemical binding]; other site 880071000767 active site 880071000768 RNA polymerase Rpc34 subunit; Region: RNA_pol_Rpc34; cl02127 880071000769 Transposase IS200 like; Region: Y1_Tnp; cl00848 880071000770 transketolase; Reviewed; Region: PRK05899 880071000771 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 880071000772 TPP-binding site [chemical binding]; other site 880071000773 dimer interface [polypeptide binding]; other site 880071000774 PGAP1-like protein; Region: PGAP1; pfam07819 880071000775 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 880071000776 Lipocalin-like domain; Region: Lipocalin_4; pfam13648 880071000777 tellurium resistance terB-like protein; Region: terB_like; cd07177 880071000778 metal binding site [ion binding]; metal-binding site 880071000779 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 880071000780 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 880071000781 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880071000782 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 880071000783 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 880071000784 S-adenosylmethionine binding site [chemical binding]; other site 880071000785 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 880071000786 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 880071000787 NlpC/P60 family; Region: NLPC_P60; pfam00877 880071000788 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 880071000789 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 880071000790 catalytic triad [active] 880071000791 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 880071000792 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 880071000793 dimer interface [polypeptide binding]; other site 880071000794 decamer (pentamer of dimers) interface [polypeptide binding]; other site 880071000795 catalytic triad [active] 880071000796 peroxidatic and resolving cysteines [active] 880071000797 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 880071000798 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 880071000799 FtsX-like permease family; Region: FtsX; pfam02687 880071000800 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 880071000801 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 880071000802 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 880071000803 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 880071000804 nucleotide binding site/active site [active] 880071000805 HIT family signature motif; other site 880071000806 catalytic residue [active] 880071000807 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 880071000808 dimer interface [polypeptide binding]; other site 880071000809 putative tRNA-binding site [nucleotide binding]; other site 880071000810 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 880071000811 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 880071000812 active site 880071000813 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880071000814 Sulfatase; Region: Sulfatase; cl17466 880071000815 Protein of unknown function (Porph_ging); Region: Porph_ging; cl09903 880071000816 Protein of unknown function (Porph_ging); Region: Porph_ging; cl09903 880071000817 Protein of unknown function (Porph_ging); Region: Porph_ging; cl09903 880071000818 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880071000819 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 880071000820 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880071000821 Walker A/P-loop; other site 880071000822 ATP binding site [chemical binding]; other site 880071000823 Q-loop/lid; other site 880071000824 ABC transporter signature motif; other site 880071000825 Walker B; other site 880071000826 D-loop; other site 880071000827 H-loop/switch region; other site 880071000828 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 880071000829 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 880071000830 active site 880071000831 substrate binding site [chemical binding]; other site 880071000832 Mg2+ binding site [ion binding]; other site 880071000833 elongation factor P; Validated; Region: PRK00529 880071000834 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 880071000835 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 880071000836 RNA binding site [nucleotide binding]; other site 880071000837 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 880071000838 RNA binding site [nucleotide binding]; other site 880071000839 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 880071000840 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 880071000841 carboxyltransferase (CT) interaction site; other site 880071000842 biotinylation site [posttranslational modification]; other site 880071000843 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 880071000844 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 880071000845 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 880071000846 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 880071000847 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 880071000848 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 880071000849 Uncharacterized conserved protein [Function unknown]; Region: COG5276 880071000850 short chain dehydrogenase; Provisional; Region: PRK06500 880071000851 classical (c) SDRs; Region: SDR_c; cd05233 880071000852 NAD(P) binding site [chemical binding]; other site 880071000853 active site 880071000854 Integral membrane protein DUF95; Region: DUF95; pfam01944 880071000855 RDD family; Region: RDD; pfam06271 880071000856 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 880071000857 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 880071000858 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 880071000859 acyl-activating enzyme (AAE) consensus motif; other site 880071000860 putative AMP binding site [chemical binding]; other site 880071000861 putative active site [active] 880071000862 putative CoA binding site [chemical binding]; other site 880071000863 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 880071000864 active site 880071000865 metal binding site [ion binding]; metal-binding site 880071000866 CoA binding domain; Region: CoA_binding_2; pfam13380 880071000867 Domain of unknown function (DUF697); Region: DUF697; pfam05128 880071000868 Short C-terminal domain; Region: SHOCT; pfam09851 880071000869 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 880071000870 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 880071000871 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 880071000872 ABC transporter; Region: ABC_tran_2; pfam12848 880071000873 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 880071000874 PAS domain S-box; Region: sensory_box; TIGR00229 880071000875 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 880071000876 putative active site [active] 880071000877 heme pocket [chemical binding]; other site 880071000878 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 880071000879 dimer interface [polypeptide binding]; other site 880071000880 phosphorylation site [posttranslational modification] 880071000881 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 880071000882 ATP binding site [chemical binding]; other site 880071000883 Mg2+ binding site [ion binding]; other site 880071000884 G-X-G motif; other site 880071000885 Response regulator receiver domain; Region: Response_reg; pfam00072 880071000886 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 880071000887 active site 880071000888 phosphorylation site [posttranslational modification] 880071000889 intermolecular recognition site; other site 880071000890 dimerization interface [polypeptide binding]; other site 880071000891 Hpt domain; Region: Hpt; pfam01627 880071000892 putative binding surface; other site 880071000893 active site 880071000894 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 880071000895 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 880071000896 FAD binding pocket [chemical binding]; other site 880071000897 FAD binding motif [chemical binding]; other site 880071000898 phosphate binding motif [ion binding]; other site 880071000899 beta-alpha-beta structure motif; other site 880071000900 NAD(p) ribose binding residues [chemical binding]; other site 880071000901 NAD binding pocket [chemical binding]; other site 880071000902 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 880071000903 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 880071000904 catalytic loop [active] 880071000905 iron binding site [ion binding]; other site 880071000906 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 880071000907 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 880071000908 HlyD family secretion protein; Region: HlyD_3; pfam13437 880071000909 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 880071000910 S-adenosylmethionine binding site [chemical binding]; other site 880071000911 methionine aminotransferase; Validated; Region: PRK09082 880071000912 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 880071000913 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880071000914 homodimer interface [polypeptide binding]; other site 880071000915 catalytic residue [active] 880071000916 putative glycosyl transferase; Provisional; Region: PRK10063 880071000917 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 880071000918 metal-binding site 880071000919 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 880071000920 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 880071000921 Protein of unknown function (DUF1415); Region: DUF1415; cl01301 880071000922 Double zinc ribbon; Region: DZR; pfam12773 880071000923 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 880071000924 Protein of unknown function (DUF3667); Region: DUF3667; pfam12412 880071000925 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 880071000926 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 880071000927 S-adenosylmethionine binding site [chemical binding]; other site 880071000928 recombination protein F; Reviewed; Region: recF; PRK00064 880071000929 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880071000930 Walker A/P-loop; other site 880071000931 ATP binding site [chemical binding]; other site 880071000932 Q-loop/lid; other site 880071000933 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880071000934 ABC transporter signature motif; other site 880071000935 Walker B; other site 880071000936 D-loop; other site 880071000937 H-loop/switch region; other site 880071000938 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 880071000939 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 880071000940 FeS/SAM binding site; other site 880071000941 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 880071000942 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 880071000943 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 880071000944 active site 880071000945 metal binding site [ion binding]; metal-binding site 880071000946 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 880071000947 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 880071000948 5S rRNA interface [nucleotide binding]; other site 880071000949 CTC domain interface [polypeptide binding]; other site 880071000950 L16 interface [polypeptide binding]; other site 880071000951 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 880071000952 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 880071000953 dimerization interface [polypeptide binding]; other site 880071000954 DPS ferroxidase diiron center [ion binding]; other site 880071000955 ion pore; other site 880071000956 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 880071000957 Peptidase family M48; Region: Peptidase_M48; pfam01435 880071000958 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 880071000959 E3 interaction surface; other site 880071000960 lipoyl attachment site [posttranslational modification]; other site 880071000961 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 880071000962 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 880071000963 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 880071000964 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 880071000965 Prokaryotic RING finger family 4; Region: Prok-RING_4; pfam14447 880071000966 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cl17565 880071000967 putative metal binding site [ion binding]; other site 880071000968 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 880071000969 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 880071000970 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 880071000971 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880071000972 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 880071000973 binding surface 880071000974 TPR motif; other site 880071000975 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 880071000976 TPR motif; other site 880071000977 binding surface 880071000978 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 880071000979 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 880071000980 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880071000981 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 880071000982 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 880071000983 Transposase IS200 like; Region: Y1_Tnp; cl00848 880071000984 Transposase IS200 like; Region: Y1_Tnp; cl00848 880071000985 Response regulator receiver domain; Region: Response_reg; pfam00072 880071000986 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 880071000987 active site 880071000988 phosphorylation site [posttranslational modification] 880071000989 intermolecular recognition site; other site 880071000990 dimerization interface [polypeptide binding]; other site 880071000991 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 880071000992 Walker A motif; other site 880071000993 ATP binding site [chemical binding]; other site 880071000994 Walker B motif; other site 880071000995 arginine finger; other site 880071000996 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880071000997 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880071000998 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 880071000999 dimer interface [polypeptide binding]; other site 880071001000 phosphorylation site [posttranslational modification] 880071001001 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 880071001002 ATP binding site [chemical binding]; other site 880071001003 Mg2+ binding site [ion binding]; other site 880071001004 G-X-G motif; other site 880071001005 Protein of unknown function, DUF479; Region: DUF479; cl01203 880071001006 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 880071001007 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 880071001008 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 880071001009 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 880071001010 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 880071001011 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880071001012 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880071001013 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 880071001014 binding surface 880071001015 TPR motif; other site 880071001016 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880071001017 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880071001018 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 880071001019 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 880071001020 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 880071001021 Walker A/P-loop; other site 880071001022 ATP binding site [chemical binding]; other site 880071001023 Q-loop/lid; other site 880071001024 ABC transporter signature motif; other site 880071001025 Walker B; other site 880071001026 D-loop; other site 880071001027 H-loop/switch region; other site 880071001028 Fatty acid desaturase; Region: FA_desaturase_2; pfam03405 880071001029 Acyl ACP desaturase, ferritin-like diiron-binding domain; Region: Acyl_ACP_Desat; cd01050 880071001030 homodimer interface [polypeptide binding]; other site 880071001031 putative substrate binding pocket [chemical binding]; other site 880071001032 diiron center [ion binding]; other site 880071001033 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 880071001034 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 880071001035 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 880071001036 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 880071001037 PAS fold; Region: PAS; pfam00989 880071001038 PAS domain S-box; Region: sensory_box; TIGR00229 880071001039 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 880071001040 putative active site [active] 880071001041 heme pocket [chemical binding]; other site 880071001042 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 880071001043 PAS domain; Region: PAS_9; pfam13426 880071001044 putative active site [active] 880071001045 heme pocket [chemical binding]; other site 880071001046 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 880071001047 PAS fold; Region: PAS_3; pfam08447 880071001048 putative active site [active] 880071001049 heme pocket [chemical binding]; other site 880071001050 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 880071001051 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 880071001052 putative active site [active] 880071001053 heme pocket [chemical binding]; other site 880071001054 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 880071001055 putative active site [active] 880071001056 heme pocket [chemical binding]; other site 880071001057 PAS domain S-box; Region: sensory_box; TIGR00229 880071001058 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 880071001059 putative active site [active] 880071001060 heme pocket [chemical binding]; other site 880071001061 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880071001062 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 880071001063 dimer interface [polypeptide binding]; other site 880071001064 phosphorylation site [posttranslational modification] 880071001065 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 880071001066 ATP binding site [chemical binding]; other site 880071001067 G-X-G motif; other site 880071001068 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 880071001069 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 880071001070 inorganic pyrophosphatase; Provisional; Region: PRK02230 880071001071 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 880071001072 dimer interface [polypeptide binding]; other site 880071001073 substrate binding site [chemical binding]; other site 880071001074 metal binding sites [ion binding]; metal-binding site 880071001075 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880071001076 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880071001077 Tetratricopeptide repeat; Region: TPR_10; pfam13374 880071001078 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880071001079 CHAT domain; Region: CHAT; pfam12770 880071001080 Uncharacterized conserved protein [Function unknown]; Region: COG1434 880071001081 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 880071001082 putative active site [active] 880071001083 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N_2; pfam13588 880071001084 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 880071001085 Domain of unknown function (DUF4132); Region: DUF4132; pfam13569 880071001086 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 880071001087 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 880071001088 active site 880071001089 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 880071001090 endonuclease III; Region: ENDO3c; smart00478 880071001091 minor groove reading motif; other site 880071001092 helix-hairpin-helix signature motif; other site 880071001093 substrate binding pocket [chemical binding]; other site 880071001094 active site 880071001095 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 880071001096 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 880071001097 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 880071001098 active site 880071001099 HIGH motif; other site 880071001100 nucleotide binding site [chemical binding]; other site 880071001101 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 880071001102 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 880071001103 active site 880071001104 KMSKS motif; other site 880071001105 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 880071001106 tRNA binding surface [nucleotide binding]; other site 880071001107 anticodon binding site; other site 880071001108 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 880071001109 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cd01292 880071001110 active site 880071001111 Caspase domain; Region: Peptidase_C14; pfam00656 880071001112 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 880071001113 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 880071001114 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 880071001115 trmE is a tRNA modification GTPase; Region: trmE; cd04164 880071001116 G1 box; other site 880071001117 GTP/Mg2+ binding site [chemical binding]; other site 880071001118 Switch I region; other site 880071001119 G2 box; other site 880071001120 Switch II region; other site 880071001121 G3 box; other site 880071001122 G4 box; other site 880071001123 G5 box; other site 880071001124 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 880071001125 MarC family integral membrane protein; Region: MarC; pfam01914 880071001126 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 880071001127 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 880071001128 N-acetyl-D-glucosamine binding site [chemical binding]; other site 880071001129 catalytic residue [active] 880071001130 Uncharacterized protein family UPF0027; Region: UPF0027; cl17455 880071001131 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 880071001132 active site 880071001133 catalytic residues [active] 880071001134 metal binding site [ion binding]; metal-binding site 880071001135 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 880071001136 Surface antigen; Region: Bac_surface_Ag; pfam01103 880071001137 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 880071001138 Glycoprotease family; Region: Peptidase_M22; pfam00814 880071001139 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 880071001140 mce related protein; Region: MCE; pfam02470 880071001141 Predicted transcriptional regulators [Transcription]; Region: COG1510 880071001142 MarR family; Region: MarR_2; cl17246 880071001143 Outer membrane efflux protein; Region: OEP; pfam02321 880071001144 Outer membrane efflux protein; Region: OEP; pfam02321 880071001145 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 880071001146 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 880071001147 HlyD family secretion protein; Region: HlyD_3; pfam13437 880071001148 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 880071001149 Protein export membrane protein; Region: SecD_SecF; cl14618 880071001150 Phosphopantetheine attachment site; Region: PP-binding; cl09936 880071001151 trigger factor; Region: tig; TIGR00115 880071001152 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 880071001153 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 880071001154 oligomer interface [polypeptide binding]; other site 880071001155 active site 880071001156 metal binding site [ion binding]; metal-binding site 880071001157 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 880071001158 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 880071001159 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 880071001160 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 880071001161 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 880071001162 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 880071001163 active site 880071001164 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 880071001165 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 880071001166 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 880071001167 dimer interface [polypeptide binding]; other site 880071001168 conserved gate region; other site 880071001169 putative PBP binding loops; other site 880071001170 ABC-ATPase subunit interface; other site 880071001171 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 880071001172 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 880071001173 ATP binding site [chemical binding]; other site 880071001174 putative Mg++ binding site [ion binding]; other site 880071001175 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 880071001176 nucleotide binding region [chemical binding]; other site 880071001177 ATP-binding site [chemical binding]; other site 880071001178 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 880071001179 HRDC domain; Region: HRDC; pfam00570 880071001180 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 880071001181 amphipathic channel; other site 880071001182 Asn-Pro-Ala signature motifs; other site 880071001183 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 880071001184 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 880071001185 catalytic loop [active] 880071001186 iron binding site [ion binding]; other site 880071001187 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 880071001188 FAD binding pocket [chemical binding]; other site 880071001189 FAD binding motif [chemical binding]; other site 880071001190 phosphate binding motif [ion binding]; other site 880071001191 beta-alpha-beta structure motif; other site 880071001192 NAD binding pocket [chemical binding]; other site 880071001193 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 880071001194 active site 880071001195 homodimer interface [polypeptide binding]; other site 880071001196 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 880071001197 active site 880071001198 Periplasmic binding protein TroA_d. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_d; cd01141 880071001199 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 880071001200 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 880071001201 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 880071001202 active site 880071001203 HIGH motif; other site 880071001204 dimer interface [polypeptide binding]; other site 880071001205 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 880071001206 KMSKS motif; other site 880071001207 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 880071001208 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 880071001209 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 880071001210 catalytic residue [active] 880071001211 AhpC/TSA family; Region: AhpC-TSA; pfam00578 880071001212 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 880071001213 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 880071001214 dimerization interface [polypeptide binding]; other site 880071001215 putative DNA binding site [nucleotide binding]; other site 880071001216 putative Zn2+ binding site [ion binding]; other site 880071001217 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 880071001218 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 880071001219 non-specific DNA binding site [nucleotide binding]; other site 880071001220 salt bridge; other site 880071001221 sequence-specific DNA binding site [nucleotide binding]; other site 880071001222 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 880071001223 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880071001224 leukotriene A-4 hydrolase/aminopeptidase; Region: leuko_A4_hydro; TIGR02411 880071001225 Peptidase M1 family contains leukotriene A4 hydrolase; Region: M1_LTA4H; cd09599 880071001226 active site 880071001227 Zn binding site [ion binding]; other site 880071001228 Leukotriene A4 hydrolase, C-terminal; Region: Leuk-A4-hydro_C; pfam09127 880071001229 YtxH-like protein; Region: YtxH; cl02079 880071001230 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 880071001231 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 880071001232 CUB domain; extracellular domain; present in proteins mostly known to be involved in development; not found in prokaryotes, plants and yeast; Region: CUB; cd00041 880071001233 heterodimerization interface [polypeptide binding]; other site 880071001234 CUB domain; extracellular domain; present in proteins mostly known to be involved in development; not found in prokaryotes, plants and yeast; Region: CUB; cd00041 880071001235 heterodimerization interface [polypeptide binding]; other site 880071001236 CUB domain; extracellular domain; present in proteins mostly known to be involved in development; not found in prokaryotes, plants and yeast; Region: CUB; cl00049 880071001237 heterodimerization interface [polypeptide binding]; other site 880071001238 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880071001239 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 880071001240 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 880071001241 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 880071001242 ATP binding site [chemical binding]; other site 880071001243 Mg2+ binding site [ion binding]; other site 880071001244 G-X-G motif; other site 880071001245 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 880071001246 ATP binding site [chemical binding]; other site 880071001247 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 880071001248 FAD binding domain; Region: FAD_binding_4; pfam01565 880071001249 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 880071001250 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 880071001251 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 880071001252 dimerization interface [polypeptide binding]; other site 880071001253 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880071001254 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 880071001255 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 880071001256 Integrase core domain; Region: rve; pfam00665 880071001257 DDE domain; Region: DDE_Tnp_IS240; pfam13610 880071001258 Integrase core domain; Region: rve_3; pfam13683 880071001259 WbqC-like protein family; Region: WbqC; pfam08889 880071001260 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 880071001261 Clp amino terminal domain; Region: Clp_N; pfam02861 880071001262 Clp amino terminal domain; Region: Clp_N; pfam02861 880071001263 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 880071001264 Walker A motif; other site 880071001265 ATP binding site [chemical binding]; other site 880071001266 Walker B motif; other site 880071001267 arginine finger; other site 880071001268 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 880071001269 Walker A motif; other site 880071001270 ATP binding site [chemical binding]; other site 880071001271 Walker B motif; other site 880071001272 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 880071001273 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 880071001274 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 880071001275 heme-binding site [chemical binding]; other site 880071001276 Cupin domain; Region: Cupin_2; cl17218 880071001277 DNA helicase, putative; Region: TIGR00376 880071001278 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 880071001279 ATP binding site [chemical binding]; other site 880071001280 AAA domain; Region: AAA_12; pfam13087 880071001281 Methyltransferase domain; Region: Methyltransf_11; pfam08241 880071001282 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 880071001283 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 880071001284 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 880071001285 NosL; Region: NosL; cl01769 880071001286 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 880071001287 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 880071001288 Probable Catalytic site; other site 880071001289 metal-binding site 880071001290 Rhomboid family; Region: Rhomboid; cl11446 880071001291 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 880071001292 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 880071001293 Protein of unknown function (DUF2400); Region: DUF2400; pfam09674 880071001294 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 880071001295 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 880071001296 substrate binding pocket [chemical binding]; other site 880071001297 membrane-bound complex binding site; other site 880071001298 hinge residues; other site 880071001299 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880071001300 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 880071001301 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 880071001302 ligand binding site [chemical binding]; other site 880071001303 flexible hinge region; other site 880071001304 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 880071001305 non-specific DNA interactions [nucleotide binding]; other site 880071001306 DNA binding site [nucleotide binding] 880071001307 sequence specific DNA binding site [nucleotide binding]; other site 880071001308 putative cAMP binding site [chemical binding]; other site 880071001309 Family description; Region: DsbD_2; pfam13386 880071001310 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 880071001311 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 880071001312 NAD(P) binding pocket [chemical binding]; other site 880071001313 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 880071001314 FixH; Region: FixH; pfam05751 880071001315 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 880071001316 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 880071001317 Cytochrome c; Region: Cytochrom_C; cl11414 880071001318 Cytochrome c; Region: Cytochrom_C; pfam00034 880071001319 putative bifunctional cbb3-type cytochrome c oxidase subunit I/II; Provisional; Region: PRK14485 880071001320 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 880071001321 Low-spin heme binding site [chemical binding]; other site 880071001322 Putative water exit pathway; other site 880071001323 Binuclear center (active site) [active] 880071001324 Putative proton exit pathway; other site 880071001325 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 880071001326 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 880071001327 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 880071001328 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 880071001329 ATP binding site [chemical binding]; other site 880071001330 Mg2+ binding site [ion binding]; other site 880071001331 G-X-G motif; other site 880071001332 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 880071001333 anchoring element; other site 880071001334 dimer interface [polypeptide binding]; other site 880071001335 ATP binding site [chemical binding]; other site 880071001336 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 880071001337 active site 880071001338 putative metal-binding site [ion binding]; other site 880071001339 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 880071001340 CsbD-like; Region: CsbD; cl17424 880071001341 Vitamin K-dependent gamma-carboxylase; Region: VKG_Carbox; cl02773 880071001342 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 880071001343 dihydrodipicolinate synthase; Region: dapA; TIGR00674 880071001344 dimer interface [polypeptide binding]; other site 880071001345 active site 880071001346 catalytic residue [active] 880071001347 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 880071001348 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 880071001349 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 880071001350 putative active site [active] 880071001351 putative metal binding site [ion binding]; other site 880071001352 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 880071001353 Protein of unknown function (DUF2452); Region: DUF2452; pfam10504 880071001354 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 880071001355 ATP-grasp domain; Region: ATP-grasp_4; cl17255 880071001356 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 880071001357 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 880071001358 PGAP1-like protein; Region: PGAP1; pfam07819 880071001359 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 880071001360 lipoyl attachment site [posttranslational modification]; other site 880071001361 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 880071001362 Zn binding site [ion binding]; other site 880071001363 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 880071001364 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 880071001365 pseudouridine synthase; Region: TIGR00093 880071001366 active site 880071001367 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 880071001368 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 880071001369 tetramer interface [polypeptide binding]; other site 880071001370 TPP-binding site [chemical binding]; other site 880071001371 heterodimer interface [polypeptide binding]; other site 880071001372 phosphorylation loop region [posttranslational modification] 880071001373 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 880071001374 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 880071001375 PYR/PP interface [polypeptide binding]; other site 880071001376 dimer interface [polypeptide binding]; other site 880071001377 TPP binding site [chemical binding]; other site 880071001378 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 880071001379 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 880071001380 binding surface 880071001381 TPR motif; other site 880071001382 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880071001383 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880071001384 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 880071001385 binding surface 880071001386 TPR motif; other site 880071001387 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880071001388 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880071001389 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 880071001390 binding surface 880071001391 TPR motif; other site 880071001392 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880071001393 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880071001394 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 880071001395 binding surface 880071001396 TPR motif; other site 880071001397 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880071001398 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880071001399 signal recognition particle protein; Provisional; Region: PRK10867 880071001400 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 880071001401 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 880071001402 P loop; other site 880071001403 GTP binding site [chemical binding]; other site 880071001404 Signal peptide binding domain; Region: SRP_SPB; pfam02978 880071001405 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 880071001406 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 880071001407 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 880071001408 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 880071001409 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 880071001410 gamma subunit interface [polypeptide binding]; other site 880071001411 epsilon subunit interface [polypeptide binding]; other site 880071001412 LBP interface [polypeptide binding]; other site 880071001413 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 880071001414 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 880071001415 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 880071001416 alpha subunit interaction interface [polypeptide binding]; other site 880071001417 Walker A motif; other site 880071001418 ATP binding site [chemical binding]; other site 880071001419 Walker B motif; other site 880071001420 inhibitor binding site; inhibition site 880071001421 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 880071001422 MerC mercury resistance protein; Region: MerC; cl03934 880071001423 Response regulator receiver domain; Region: Response_reg; pfam00072 880071001424 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 880071001425 active site 880071001426 phosphorylation site [posttranslational modification] 880071001427 intermolecular recognition site; other site 880071001428 dimerization interface [polypeptide binding]; other site 880071001429 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 880071001430 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 880071001431 active site 880071001432 substrate binding site [chemical binding]; other site 880071001433 coenzyme B12 binding site [chemical binding]; other site 880071001434 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 880071001435 B12 binding site [chemical binding]; other site 880071001436 cobalt ligand [ion binding]; other site 880071001437 Protein of unknown function DUF262; Region: DUF262; pfam03235 880071001438 DNA methylase; Region: N6_N4_Mtase; pfam01555 880071001439 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 880071001440 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 880071001441 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 880071001442 Domain of unknown function (DUF814); Region: DUF814; pfam05670 880071001443 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 880071001444 Histidine kinase; Region: His_kinase; pfam06580 880071001445 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 880071001446 Protein of unknown function (DUF779); Region: DUF779; pfam05610 880071001447 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 880071001448 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 880071001449 NAD(P) binding site [chemical binding]; other site 880071001450 catalytic residues [active] 880071001451 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 880071001452 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 880071001453 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 880071001454 mercuric reductase; Validated; Region: PRK06370 880071001455 Predicted oxidoreductase [General function prediction only]; Region: COG3573 880071001456 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 880071001457 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 880071001458 Protein of unknown function (DUF422); Region: DUF422; cl00991 880071001459 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 880071001460 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 880071001461 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 880071001462 peptidyl-prolyl cis-trans isomerase, EpsD family; Region: cis_trans_EpsD; TIGR02925 880071001463 von Willebrand factor type A domain; Region: VWA_2; pfam13519 880071001464 metal ion-dependent adhesion site (MIDAS); other site 880071001465 Domain of unknown function DUF20; Region: UPF0118; pfam01594 880071001466 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 880071001467 proline dehydrogenase; Region: PLN02681 880071001468 Protein of unknown function (DUF2459); Region: DUF2459; pfam09601 880071001469 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880071001470 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 880071001471 HlyD family secretion protein; Region: HlyD; pfam00529 880071001472 HlyD family secretion protein; Region: HlyD_3; pfam13437 880071001473 CcmE; Region: CcmE; cl00994 880071001474 TIR domain; Region: TIR_2; pfam13676 880071001475 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 880071001476 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 880071001477 active site 880071001478 phosphorylation site [posttranslational modification] 880071001479 intermolecular recognition site; other site 880071001480 dimerization interface [polypeptide binding]; other site 880071001481 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 880071001482 DNA binding site [nucleotide binding] 880071001483 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 880071001484 classical (c) SDRs; Region: SDR_c; cd05233 880071001485 NAD(P) binding site [chemical binding]; other site 880071001486 active site 880071001487 Protein of unknown function (DUF819); Region: DUF819; cl02317 880071001488 Family of unknown function (DUF490); Region: DUF490; pfam04357 880071001489 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 880071001490 active site 880071001491 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 880071001492 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 880071001493 dimer interface [polypeptide binding]; other site 880071001494 anticodon binding site; other site 880071001495 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 880071001496 homodimer interface [polypeptide binding]; other site 880071001497 motif 1; other site 880071001498 active site 880071001499 motif 2; other site 880071001500 GAD domain; Region: GAD; pfam02938 880071001501 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 880071001502 active site 880071001503 motif 3; other site 880071001504 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 880071001505 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 880071001506 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 880071001507 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 880071001508 dimer interface [polypeptide binding]; other site 880071001509 active site 880071001510 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 880071001511 catalytic residues [active] 880071001512 substrate binding site [chemical binding]; other site 880071001513 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 880071001514 Peptidase family M23; Region: Peptidase_M23; pfam01551 880071001515 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 880071001516 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 880071001517 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 880071001518 ATP binding site [chemical binding]; other site 880071001519 putative Mg++ binding site [ion binding]; other site 880071001520 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 880071001521 nucleotide binding region [chemical binding]; other site 880071001522 ATP-binding site [chemical binding]; other site 880071001523 ferrochelatase; Reviewed; Region: hemH; PRK00035 880071001524 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 880071001525 C-terminal domain interface [polypeptide binding]; other site 880071001526 active site 880071001527 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 880071001528 active site 880071001529 N-terminal domain interface [polypeptide binding]; other site 880071001530 threonine synthase; Validated; Region: PRK09225 880071001531 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 880071001532 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 880071001533 catalytic residue [active] 880071001534 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 880071001535 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 880071001536 DHH family; Region: DHH; pfam01368 880071001537 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 880071001538 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 880071001539 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 880071001540 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 880071001541 peptidyl-prolyl isomerase, gliding motility-associated; Region: ppisom_GldI; TIGR03516 880071001542 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 880071001543 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 880071001544 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 880071001545 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 880071001546 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 880071001547 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 880071001548 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 880071001549 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 880071001550 RPB3 interaction site [polypeptide binding]; other site 880071001551 RPB1 interaction site [polypeptide binding]; other site 880071001552 RPB11 interaction site [polypeptide binding]; other site 880071001553 RPB10 interaction site [polypeptide binding]; other site 880071001554 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 880071001555 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 880071001556 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 880071001557 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 880071001558 methionine sulfoxide reductase A; Provisional; Region: PRK14054 880071001559 exopolyphosphatase; Region: exo_poly_only; TIGR03706 880071001560 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 880071001561 Mechanosensitive ion channel; Region: MS_channel; pfam00924 880071001562 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 880071001563 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 880071001564 catalytic core [active] 880071001565 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880071001566 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 880071001567 putative catalytic residues [active] 880071001568 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 880071001569 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 880071001570 motif 1; other site 880071001571 active site 880071001572 motif 2; other site 880071001573 motif 3; other site 880071001574 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 880071001575 DHHA1 domain; Region: DHHA1; pfam02272 880071001576 phytoene desaturase; Region: crtI_fam; TIGR02734 880071001577 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 880071001578 Dehydroquinase class II; Region: DHquinase_II; pfam01220 880071001579 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 880071001580 trimer interface [polypeptide binding]; other site 880071001581 active site 880071001582 dimer interface [polypeptide binding]; other site 880071001583 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 880071001584 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 880071001585 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 880071001586 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 880071001587 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 880071001588 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 880071001589 Transglutaminase-like superfamily; Region: Transglut_core; cl17362 880071001590 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 880071001591 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; pfam09912 880071001592 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880071001593 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 880071001594 binding surface 880071001595 TPR motif; other site 880071001596 Histidine kinase; Region: His_kinase; pfam06580 880071001597 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 880071001598 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 880071001599 active site 880071001600 phosphorylation site [posttranslational modification] 880071001601 intermolecular recognition site; other site 880071001602 dimerization interface [polypeptide binding]; other site 880071001603 LytTr DNA-binding domain; Region: LytTR; pfam04397 880071001604 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 880071001605 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 880071001606 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 880071001607 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 880071001608 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 880071001609 active site 880071001610 Riboflavin kinase; Region: Flavokinase; smart00904 880071001611 Predicted transcriptional regulators [Transcription]; Region: COG1510 880071001612 MarR family; Region: MarR_2; cl17246 880071001613 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 880071001614 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 880071001615 Zn2+ binding site [ion binding]; other site 880071001616 Mg2+ binding site [ion binding]; other site 880071001617 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 880071001618 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 880071001619 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 880071001620 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 880071001621 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 880071001622 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 880071001623 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 880071001624 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 880071001625 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880071001626 TPR repeat; Region: TPR_11; pfam13414 880071001627 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 880071001628 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 880071001629 binding surface 880071001630 TPR motif; other site 880071001631 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 880071001632 Zn binding site [ion binding]; other site 880071001633 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 880071001634 RNA repair, ligase-Pnkp-associating, region of Hen1; Region: Hen1_L; pfam12623 880071001635 3' terminal RNA ribose 2'-O-methyltransferase Hen1; Region: bacter_Hen1; TIGR04074 880071001636 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 880071001637 S-adenosylmethionine binding site [chemical binding]; other site 880071001638 polynucleotide kinase-phosphatase; Region: bacter_Pnkp; TIGR04075 880071001639 Bacillus subtilis PrpE and related proteins, metallophosphatase domain; Region: MPP_PrpE; cd07423 880071001640 active site 880071001641 metal binding site [ion binding]; metal-binding site 880071001642 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; cl15762 880071001643 oxyanion hole (OAH) forming residues; other site 880071001644 DinB superfamily; Region: DinB_2; pfam12867 880071001645 Transglycosylase; Region: Transgly; pfam00912 880071001646 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 880071001647 DoxX-like family; Region: DoxX_2; pfam13564 880071001648 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 880071001649 Predicted methyltransferases [General function prediction only]; Region: COG0313 880071001650 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 880071001651 putative SAM binding site [chemical binding]; other site 880071001652 putative homodimer interface [polypeptide binding]; other site 880071001653 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 880071001654 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 880071001655 active site 880071001656 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 880071001657 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 880071001658 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 880071001659 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 880071001660 active site 880071001661 metal binding site [ion binding]; metal-binding site 880071001662 KTSC domain; Region: KTSC; pfam13619 880071001663 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 880071001664 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 880071001665 putative metal binding site [ion binding]; other site 880071001666 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 880071001667 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 880071001668 putative metal binding site [ion binding]; other site 880071001669 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 880071001670 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 880071001671 putative metal binding site [ion binding]; other site 880071001672 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 880071001673 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03708 880071001674 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 880071001675 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 880071001676 HlyD family secretion protein; Region: HlyD_3; pfam13437 880071001677 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 880071001678 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880071001679 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 880071001680 DNA binding residues [nucleotide binding] 880071001681 Predicted helicase [General function prediction only]; Region: COG4889 880071001682 Clp protease; Region: CLP_protease; pfam00574 880071001683 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 880071001684 oligomer interface [polypeptide binding]; other site 880071001685 active site residues [active] 880071001686 Protein of unknown function DUF262; Region: DUF262; pfam03235 880071001687 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880071001688 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 880071001689 N-terminal plug; other site 880071001690 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 880071001691 ligand-binding site [chemical binding]; other site 880071001692 aspartate aminotransferase; Provisional; Region: PRK05764 880071001693 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 880071001694 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880071001695 homodimer interface [polypeptide binding]; other site 880071001696 catalytic residue [active] 880071001697 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 880071001698 non-specific DNA binding site [nucleotide binding]; other site 880071001699 salt bridge; other site 880071001700 sequence-specific DNA binding site [nucleotide binding]; other site 880071001701 Nudix hydrolase homolog; Region: PLN02791 880071001702 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 880071001703 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 880071001704 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 880071001705 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 880071001706 ligand binding site [chemical binding]; other site 880071001707 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 880071001708 Phenazine biosynthesis-like protein; Region: PhzC-PhzF; pfam02567 880071001709 thymidine kinase; Provisional; Region: PRK04296 880071001710 GldM N-terminal domain; Region: GldM_N; pfam12081 880071001711 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 880071001712 active site 880071001713 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880071001714 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880071001715 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 880071001716 binding surface 880071001717 TPR motif; other site 880071001718 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880071001719 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 880071001720 Drosophila melanogaster CG11883 and related proteins, N-terminal metallophosphatase domain; Region: MPP_CG11883_N; cd07406 880071001721 putative active site [active] 880071001722 putative metal binding site [ion binding]; other site 880071001723 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 880071001724 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 880071001725 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 880071001726 Diacylglycerol kinase accessory domain; Region: DAGK_acc; cl02440 880071001727 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 880071001728 type II restriction m6 adenine DNA methyltransferase, Alw26I/Eco31I/Esp3I family; Region: met_A_Alw26; TIGR02987 880071001729 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 880071001730 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 880071001731 oligomerisation interface [polypeptide binding]; other site 880071001732 mobile loop; other site 880071001733 roof hairpin; other site 880071001734 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 880071001735 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 880071001736 ring oligomerisation interface [polypeptide binding]; other site 880071001737 ATP/Mg binding site [chemical binding]; other site 880071001738 stacking interactions; other site 880071001739 hinge regions; other site 880071001740 Protein of unknown function (DUF1684); Region: DUF1684; pfam07920 880071001741 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 880071001742 ligand binding site [chemical binding]; other site 880071001743 active site 880071001744 UGI interface [polypeptide binding]; other site 880071001745 catalytic site [active] 880071001746 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 880071001747 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 880071001748 C-terminal peptidase (prc); Region: prc; TIGR00225 880071001749 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 880071001750 protein binding site [polypeptide binding]; other site 880071001751 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 880071001752 Catalytic dyad [active] 880071001753 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 880071001754 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 880071001755 catalytic residues [active] 880071001756 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 880071001757 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 880071001758 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 880071001759 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 880071001760 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 880071001761 putative SAM binding site [chemical binding]; other site 880071001762 homodimer interface [polypeptide binding]; other site 880071001763 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 880071001764 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 880071001765 Response regulator receiver domain; Region: Response_reg; pfam00072 880071001766 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 880071001767 active site 880071001768 phosphorylation site [posttranslational modification] 880071001769 intermolecular recognition site; other site 880071001770 dimerization interface [polypeptide binding]; other site 880071001771 DNA primase, catalytic core; Region: dnaG; TIGR01391 880071001772 CHC2 zinc finger; Region: zf-CHC2; cl17510 880071001773 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 880071001774 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 880071001775 active site 880071001776 metal binding site [ion binding]; metal-binding site 880071001777 interdomain interaction site; other site 880071001778 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 880071001779 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880071001780 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 880071001781 binding surface 880071001782 TPR motif; other site 880071001783 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 880071001784 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880071001785 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880071001786 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 880071001787 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 880071001788 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 880071001789 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 880071001790 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 880071001791 active site 880071001792 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 880071001793 dimer interface [polypeptide binding]; other site 880071001794 substrate binding site [chemical binding]; other site 880071001795 catalytic residues [active] 880071001796 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880071001797 spermidine synthase; Provisional; Region: PRK03612 880071001798 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 880071001799 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 880071001800 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like; cd07473 880071001801 catalytic triad [active] 880071001802 putative active site [active] 880071001803 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880071001804 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 880071001805 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 880071001806 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 880071001807 ligand binding site [chemical binding]; other site 880071001808 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 880071001809 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 880071001810 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 880071001811 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 880071001812 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 880071001813 catalytic residues [active] 880071001814 DinB superfamily; Region: DinB_2; pfam12867 880071001815 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; pfam11716 880071001816 gliding motility associated protien GldN; Region: GldN; TIGR03523 880071001817 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 880071001818 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 880071001819 active site 880071001820 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u1; cd11477 880071001821 Na binding site [ion binding]; other site 880071001822 Predicted membrane protein [Function unknown]; Region: COG2855 880071001823 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 880071001824 FAD binding site [chemical binding]; other site 880071001825 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 880071001826 ligand-binding site [chemical binding]; other site 880071001827 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 880071001828 GAF domain; Region: GAF; pfam01590 880071001829 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 880071001830 dimer interface [polypeptide binding]; other site 880071001831 phosphorylation site [posttranslational modification] 880071001832 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880071001833 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 880071001834 ATP binding site [chemical binding]; other site 880071001835 Mg2+ binding site [ion binding]; other site 880071001836 G-X-G motif; other site 880071001837 Response regulator receiver domain; Region: Response_reg; pfam00072 880071001838 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 880071001839 active site 880071001840 phosphorylation site [posttranslational modification] 880071001841 intermolecular recognition site; other site 880071001842 dimerization interface [polypeptide binding]; other site 880071001843 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 880071001844 AAK_AK-HSDH-like: Amino Acid Kinase Superfamily (AAK), AK-HSDH-like; this family includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK- homoserine dehydrogenase (HSDH). These aspartokinases are found in such...; Region: AAK_AK-HSDH-like; cd04243 880071001845 putative catalytic residues [active] 880071001846 nucleotide binding site [chemical binding]; other site 880071001847 aspartate binding site [chemical binding]; other site 880071001848 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 880071001849 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 880071001850 putative threonine allosteric regulatory site; other site 880071001851 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 880071001852 homoserine kinase; Provisional; Region: PRK01212 880071001853 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 880071001854 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 880071001855 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 880071001856 Pseudomonas putida Aldehyde dehydrogenase AlkH-like; Region: ALDH_AlkH-like; cd07134 880071001857 NAD(P) binding site [chemical binding]; other site 880071001858 catalytic residues [active] 880071001859 Uncharacterized conserved protein [Function unknown]; Region: COG3472 880071001860 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 880071001861 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 880071001862 motif II; other site 880071001863 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 880071001864 Beta-lactamase; Region: Beta-lactamase; pfam00144 880071001865 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 880071001866 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 880071001867 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 880071001868 putative active site [active] 880071001869 Vitamin K epoxide reductase (VKOR) family in bacteria; Region: VKOR_4; cd12921 880071001870 putative active site [active] 880071001871 redox center [active] 880071001872 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 880071001873 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 880071001874 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 880071001875 catalytic residues [active] 880071001876 HEAT repeats; Region: HEAT_2; pfam13646 880071001877 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 880071001878 oligomeric interface; other site 880071001879 putative active site [active] 880071001880 homodimer interface [polypeptide binding]; other site 880071001881 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 880071001882 Family description; Region: UvrD_C_2; pfam13538 880071001883 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 880071001884 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 880071001885 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 880071001886 acyl-activating enzyme (AAE) consensus motif; other site 880071001887 putative AMP binding site [chemical binding]; other site 880071001888 putative active site [active] 880071001889 putative CoA binding site [chemical binding]; other site 880071001890 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 880071001891 active site 880071001892 HflC protein; Region: hflC; TIGR01932 880071001893 SPFH domain / Band 7 family; Region: Band_7; pfam01145 880071001894 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 880071001895 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 880071001896 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 880071001897 Walker A motif; other site 880071001898 ATP binding site [chemical binding]; other site 880071001899 Walker B motif; other site 880071001900 arginine finger; other site 880071001901 Peptidase family M41; Region: Peptidase_M41; pfam01434 880071001902 Oligomerisation domain; Region: Oligomerisation; pfam02410 880071001903 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 880071001904 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 880071001905 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 880071001906 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 880071001907 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 880071001908 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 880071001909 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 880071001910 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 880071001911 Peptidase M3 Thimet oligopeptidase (TOP) also includes neurolysin; Region: M3A_TOP; cd06455 880071001912 active site 880071001913 Zn binding site [ion binding]; other site 880071001914 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880071001915 TIGR01777 family protein; Region: yfcH 880071001916 NAD(P) binding site [chemical binding]; other site 880071001917 active site 880071001918 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 880071001919 Protein of unknown function DUF58; Region: DUF58; pfam01882 880071001920 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 880071001921 metal ion-dependent adhesion site (MIDAS); other site 880071001922 Predicted NTPase (NACHT family) [Signal transduction mechanisms]; Region: COG5635 880071001923 WGR domain; Region: WGR; cl01581 880071001924 ADP_ribosylating enzymes catalyze the transfer of ADP_ribose from NAD+ to substrates. Bacterial toxins are cytoplasmic and catalyze the transfer of a single ADP_ribose unit to eukaryotic elongation factor 2, halting protein synthesis and killing the cell; Region: ADP_ribosyl; cl00283 880071001925 nad+ binding pocket [chemical binding]; other site 880071001926 Thiopurine S-methyltransferase (TPMT); Region: TPMT; pfam05724 880071001927 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 880071001928 putative nucleotide binding site [chemical binding]; other site 880071001929 uridine monophosphate binding site [chemical binding]; other site 880071001930 homohexameric interface [polypeptide binding]; other site 880071001931 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 880071001932 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 880071001933 ATP binding site [chemical binding]; other site 880071001934 Mg++ binding site [ion binding]; other site 880071001935 motif III; other site 880071001936 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 880071001937 nucleotide binding region [chemical binding]; other site 880071001938 ATP-binding site [chemical binding]; other site 880071001939 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: alt_bact_glmU; TIGR03991 880071001940 Sugar nucleotidyl transferase; Region: NTP_transf_4; pfam13562 880071001941 Uncharacterized proteins, Left-handed parallel beta-Helix (LbH) domain: Members in this group are uncharacterized bacterial proteins containing a LbH domain with multiple turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif...; Region: LbH_unknown; cd05635 880071001942 Uncharacterized conserved protein [Function unknown]; Region: COG2454 880071001943 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 880071001944 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 880071001945 inhibitor-cofactor binding pocket; inhibition site 880071001946 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880071001947 catalytic residue [active] 880071001948 nicotinate-nucleotide diphosphorylase (carboxylating); Region: PLN02716 880071001949 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 880071001950 dimerization interface [polypeptide binding]; other site 880071001951 active site 880071001952 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 880071001953 active site 880071001954 substrate binding site [chemical binding]; other site 880071001955 cosubstrate binding site; other site 880071001956 catalytic site [active] 880071001957 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 880071001958 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 880071001959 GAF domain; Region: GAF_3; pfam13492 880071001960 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880071001961 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 880071001962 MoxR-like ATPases [General function prediction only]; Region: COG0714 880071001963 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 880071001964 Walker A motif; other site 880071001965 ATP binding site [chemical binding]; other site 880071001966 Walker B motif; other site 880071001967 arginine finger; other site 880071001968 Methyltransferase domain; Region: Methyltransf_23; pfam13489 880071001969 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 880071001970 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 880071001971 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 880071001972 ligand binding site [chemical binding]; other site 880071001973 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 880071001974 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 880071001975 active site 880071001976 HIGH motif; other site 880071001977 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 880071001978 KMSKS motif; other site 880071001979 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 880071001980 tRNA binding surface [nucleotide binding]; other site 880071001981 anticodon binding site; other site 880071001982 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880071001983 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 880071001984 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 880071001985 putative active site [active] 880071001986 putative metal binding site [ion binding]; other site 880071001987 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12901 880071001988 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 880071001989 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 880071001990 nucleotide binding region [chemical binding]; other site 880071001991 ATP-binding site [chemical binding]; other site 880071001992 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880071001993 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 880071001994 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 880071001995 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 880071001996 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 880071001997 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 880071001998 dimer interface [polypeptide binding]; other site 880071001999 Citrate synthase; Region: Citrate_synt; pfam00285 880071002000 active site 880071002001 citrylCoA binding site [chemical binding]; other site 880071002002 NADH binding [chemical binding]; other site 880071002003 cationic pore residues; other site 880071002004 oxalacetate/citrate binding site [chemical binding]; other site 880071002005 coenzyme A binding site [chemical binding]; other site 880071002006 catalytic triad [active] 880071002007 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 880071002008 Domain of unknown function DUF20; Region: UPF0118; pfam01594 880071002009 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 880071002010 Predicted membrane protein (DUF2061); Region: DUF2061; pfam09834 880071002011 Predicted membrane protein (DUF2061); Region: DUF2061; pfam09834 880071002012 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 880071002013 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 880071002014 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 880071002015 Oxygen tolerance; Region: BatD; pfam13584 880071002016 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 880071002017 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 880071002018 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880071002019 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 880071002020 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 880071002021 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 880071002022 Coenzyme A binding pocket [chemical binding]; other site 880071002023 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 880071002024 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 880071002025 metal binding site [ion binding]; metal-binding site 880071002026 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 880071002027 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880071002028 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880071002029 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 880071002030 dimer interface [polypeptide binding]; other site 880071002031 phosphorylation site [posttranslational modification] 880071002032 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 880071002033 ATP binding site [chemical binding]; other site 880071002034 Mg2+ binding site [ion binding]; other site 880071002035 G-X-G motif; other site 880071002036 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 880071002037 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 880071002038 ATP binding site [chemical binding]; other site 880071002039 Mg++ binding site [ion binding]; other site 880071002040 motif III; other site 880071002041 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 880071002042 nucleotide binding region [chemical binding]; other site 880071002043 ATP-binding site [chemical binding]; other site 880071002044 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 880071002045 RNA binding site [nucleotide binding]; other site 880071002046 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 880071002047 putative active site [active] 880071002048 putative metal binding site [ion binding]; other site 880071002049 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 880071002050 Part of AAA domain; Region: AAA_19; pfam13245 880071002051 Family description; Region: UvrD_C_2; pfam13538 880071002052 hypothetical protein; Provisional; Region: PRK12378 880071002053 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 880071002054 Peptidase family M28; Region: Peptidase_M28; pfam04389 880071002055 metal binding site [ion binding]; metal-binding site 880071002056 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 880071002057 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 880071002058 Na binding site [ion binding]; other site 880071002059 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 880071002060 Cu(I) binding site [ion binding]; other site 880071002061 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 880071002062 YHYH protein; Region: YHYH; pfam14240 880071002063 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 880071002064 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 880071002065 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 880071002066 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 880071002067 FecR protein; Region: FecR; pfam04773 880071002068 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 880071002069 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 880071002070 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 880071002071 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 880071002072 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 880071002073 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 880071002074 ligand binding site [chemical binding]; other site 880071002075 flexible hinge region; other site 880071002076 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 880071002077 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 880071002078 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 880071002079 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 880071002080 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 880071002081 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 880071002082 Staphylococcal nuclease homologues; Region: SNc; smart00318 880071002083 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 880071002084 Catalytic site; other site 880071002085 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 880071002086 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 880071002087 Ligand binding site; other site 880071002088 Putative Catalytic site; other site 880071002089 DXD motif; other site 880071002090 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 880071002091 catalytic residues [active] 880071002092 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 880071002093 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 880071002094 Ligand Binding Site [chemical binding]; other site 880071002095 Calcium binding; Region: Calci_bind_CcbP; pfam11535 880071002096 Domain of unknown function (DUF3885); Region: DUF3885; pfam13021 880071002097 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 880071002098 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 880071002099 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 880071002100 active site 880071002101 metal binding site [ion binding]; metal-binding site 880071002102 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 880071002103 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 880071002104 starch binding outer membrane protein SusD; Region: SusD; cd08977 880071002105 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880071002106 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880071002107 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880071002108 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 880071002109 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 880071002110 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 880071002111 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880071002112 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 880071002113 Predicted transcriptional regulator [Transcription]; Region: COG2378 880071002114 HTH domain; Region: HTH_11; pfam08279 880071002115 WYL domain; Region: WYL; pfam13280 880071002116 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 880071002117 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 880071002118 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 880071002119 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 880071002120 hypothetical protein; Provisional; Region: PRK11820 880071002121 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 880071002122 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 880071002123 FOG: WD40 repeat [General function prediction only]; Region: COG2319 880071002124 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 880071002125 structural tetrad; other site 880071002126 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 880071002127 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 880071002128 ligand binding site [chemical binding]; other site 880071002129 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 880071002130 Subunit I/III interface [polypeptide binding]; other site 880071002131 Predicted small integral membrane protein [Function unknown]; Region: COG5605 880071002132 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 880071002133 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 880071002134 Cu(I) binding site [ion binding]; other site 880071002135 Protein of unknown function (DUF420); Region: DUF420; pfam04238 880071002136 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 880071002137 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 880071002138 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 880071002139 FeS/SAM binding site; other site 880071002140 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 880071002141 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 880071002142 dimerization interface 3.5A [polypeptide binding]; other site 880071002143 active site 880071002144 2-phosphosulpholactate phosphatase; Region: 2-ph_phosp; pfam04029 880071002145 Phosphosulfolactate phosphohydrolase and related enzymes [Coenzyme metabolism / General function prediction only]; Region: COG2045 880071002146 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 880071002147 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 880071002148 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 880071002149 catalytic residue [active] 880071002150 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880071002151 leucyl-tRNA synthetase, eubacterial and mitochondrial family; Region: leuS_bact; TIGR00396 880071002152 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 880071002153 HIGH motif; other site 880071002154 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 880071002155 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 880071002156 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 880071002157 active site 880071002158 KMSKS motif; other site 880071002159 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 880071002160 tRNA binding surface [nucleotide binding]; other site 880071002161 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 880071002162 active site 880071002163 Protein of unknown function (DUF3078); Region: DUF3078; pfam11276 880071002164 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 880071002165 dihydroorotase; Reviewed; Region: PRK09236 880071002166 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 880071002167 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 880071002168 active site 880071002169 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 880071002170 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 880071002171 cofactor binding site; other site 880071002172 DNA binding site [nucleotide binding] 880071002173 substrate interaction site [chemical binding]; other site 880071002174 NgoPII restriction endonuclease; Region: RE_NgoPII; pfam09521 880071002175 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 880071002176 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 880071002177 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 880071002178 metal-binding site [ion binding] 880071002179 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 880071002180 Soluble P-type ATPase [General function prediction only]; Region: COG4087 880071002181 Predicted helicase [General function prediction only]; Region: COG4889 880071002182 RNA polymerase sigma factor, cyanobacterial RpoD-like family; Region: Sig70-cyanoRpoD; TIGR02997 880071002183 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 880071002184 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880071002185 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 880071002186 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 880071002187 DNA binding residues [nucleotide binding] 880071002188 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 880071002189 Surface antigen; Region: Bac_surface_Ag; pfam01103 880071002190 Methyltransferase domain; Region: Methyltransf_31; pfam13847 880071002191 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 880071002192 S-adenosylmethionine binding site [chemical binding]; other site 880071002193 recombinase A; Provisional; Region: recA; PRK09354 880071002194 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 880071002195 hexamer interface [polypeptide binding]; other site 880071002196 Walker A motif; other site 880071002197 ATP binding site [chemical binding]; other site 880071002198 Walker B motif; other site 880071002199 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 880071002200 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 880071002201 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 880071002202 GIY-YIG motif/motif A; other site 880071002203 active site 880071002204 catalytic site [active] 880071002205 putative DNA binding site [nucleotide binding]; other site 880071002206 metal binding site [ion binding]; metal-binding site 880071002207 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 880071002208 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 880071002209 putative catalytic site [active] 880071002210 putative metal binding site [ion binding]; other site 880071002211 putative phosphate binding site [ion binding]; other site 880071002212 Major Facilitator Superfamily; Region: MFS_1; pfam07690 880071002213 TPR/MLP1/MLP2-like protein; Region: TPR_MLP1_2; pfam07926 880071002214 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880071002215 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 880071002216 human 17-beta-hydroxysteroid dehydrogenase XI-like, classical (c) SDRs; Region: 17beta-HSDXI-like_SDR_c; cd05339 880071002217 putative NAD(P) binding site [chemical binding]; other site 880071002218 homodimer interface [polypeptide binding]; other site 880071002219 active site 880071002220 substrate binding site [chemical binding]; other site 880071002221 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 880071002222 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 880071002223 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 880071002224 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 880071002225 HflX GTPase family; Region: HflX; cd01878 880071002226 G1 box; other site 880071002227 GTP/Mg2+ binding site [chemical binding]; other site 880071002228 Switch I region; other site 880071002229 G2 box; other site 880071002230 G3 box; other site 880071002231 Switch II region; other site 880071002232 G4 box; other site 880071002233 G5 box; other site 880071002234 Uncharacterized conserved protein [Function unknown]; Region: COG4198 880071002235 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 880071002236 Domain of unknown function (DUF4286); Region: DUF4286; pfam14114 880071002237 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 880071002238 metal binding site 2 [ion binding]; metal-binding site 880071002239 putative DNA binding helix; other site 880071002240 metal binding site 1 [ion binding]; metal-binding site 880071002241 dimer interface [polypeptide binding]; other site 880071002242 structural Zn2+ binding site [ion binding]; other site 880071002243 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 880071002244 active site 880071002245 intersubunit interactions; other site 880071002246 catalytic residue [active] 880071002247 shikimate 5-dehydrogenase; Region: aroE; TIGR00507 880071002248 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 880071002249 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 880071002250 shikimate binding site; other site 880071002251 NAD(P) binding site [chemical binding]; other site 880071002252 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 880071002253 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 880071002254 putative active site [active] 880071002255 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 880071002256 Interdomain contacts; other site 880071002257 Cytokine receptor motif; other site 880071002258 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 880071002259 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 880071002260 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880071002261 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 880071002262 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 880071002263 dimer interface [polypeptide binding]; other site 880071002264 conserved gate region; other site 880071002265 putative PBP binding loops; other site 880071002266 ABC-ATPase subunit interface; other site 880071002267 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 880071002268 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 880071002269 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 880071002270 Walker A/P-loop; other site 880071002271 ATP binding site [chemical binding]; other site 880071002272 Q-loop/lid; other site 880071002273 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 880071002274 ABC transporter signature motif; other site 880071002275 Walker B; other site 880071002276 D-loop; other site 880071002277 H-loop/switch region; other site 880071002278 Restriction endonuclease [Defense mechanisms]; Region: Mrr; COG1715 880071002279 Mrr N-terminal domain; Region: Mrr_N; pfam14338 880071002280 Restriction endonuclease; Region: Mrr_cat; pfam04471 880071002281 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 880071002282 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 880071002283 dimer interface [polypeptide binding]; other site 880071002284 active site 880071002285 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 880071002286 catalytic residues [active] 880071002287 substrate binding site [chemical binding]; other site 880071002288 Peptidase M1 family Aminopeptidase N; Region: M1_APN_4; cd09603 880071002289 Peptidase family M1; Region: Peptidase_M1; pfam01433 880071002290 Zn binding site [ion binding]; other site 880071002291 HEAT repeats; Region: HEAT_2; pfam13646 880071002292 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 880071002293 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 880071002294 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 880071002295 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 880071002296 Predicted nucleotidyltransferase [General function prediction only]; Region: COG4849 880071002297 Uncharacterized protein conserved in bacteria (DUF2186); Region: DUF2186; pfam09952 880071002298 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cd00306 880071002299 active site 880071002300 catalytic residues [active] 880071002301 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 880071002302 GLPGLI family protein; Region: GLPGLI; TIGR01200 880071002303 Acyl-protein synthetase, LuxE; Region: LuxE; pfam04443 880071002304 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 880071002305 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 880071002306 Walker A motif; other site 880071002307 ATP binding site [chemical binding]; other site 880071002308 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 880071002309 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 880071002310 hypothetical protein; Provisional; Region: PRK13665 880071002311 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 880071002312 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 880071002313 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 880071002314 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 880071002315 ATP binding site [chemical binding]; other site 880071002316 Mg2+ binding site [ion binding]; other site 880071002317 G-X-G motif; other site 880071002318 Haemolytic domain; Region: Haemolytic; pfam01809 880071002319 Transposase IS200 like; Region: Y1_Tnp; cl00848 880071002320 major vault protein; Provisional; Region: PTZ00491 880071002321 Shoulder domain; Region: MVP_shoulder; pfam11978 880071002322 PIN domain; Region: PIN; pfam01850 880071002323 putative active site [active] 880071002324 leucine-rich repeat receptor-like protein kinase; Provisional; Region: PLN00113 880071002325 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 880071002326 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 880071002327 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 880071002328 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 880071002329 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 880071002330 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 880071002331 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 880071002332 motif II; other site 880071002333 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 880071002334 Saccharopine Dehydrogenase like proteins; Region: SDH_like; cd05199 880071002335 active site 880071002336 ligand binding site [chemical binding]; other site 880071002337 NAD(P) binding site [chemical binding]; other site 880071002338 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 880071002339 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 880071002340 ScpA/B protein; Region: ScpA_ScpB; cl00598 880071002341 DNA polymerase III PolC; Validated; Region: polC; PRK00448 880071002342 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880071002343 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880071002344 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 880071002345 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 880071002346 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 880071002347 NAD binding site [chemical binding]; other site 880071002348 Phe binding site; other site 880071002349 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 880071002350 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 880071002351 TM2 domain; Region: TM2; pfam05154 880071002352 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 880071002353 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 880071002354 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 880071002355 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 880071002356 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 880071002357 Peptidase family M23; Region: Peptidase_M23; pfam01551 880071002358 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 880071002359 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 880071002360 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 880071002361 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 880071002362 dimer interface [polypeptide binding]; other site 880071002363 motif 1; other site 880071002364 active site 880071002365 motif 2; other site 880071002366 motif 3; other site 880071002367 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 880071002368 anticodon binding site; other site 880071002369 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 880071002370 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 880071002371 catalytic residues [active] 880071002372 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 880071002373 anti sigma factor interaction site; other site 880071002374 regulatory phosphorylation site [posttranslational modification]; other site 880071002375 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 880071002376 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 880071002377 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 880071002378 TPP-binding site; other site 880071002379 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 880071002380 PYR/PP interface [polypeptide binding]; other site 880071002381 dimer interface [polypeptide binding]; other site 880071002382 TPP binding site [chemical binding]; other site 880071002383 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 880071002384 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 880071002385 PAS domain; Region: PAS_9; pfam13426 880071002386 putative active site [active] 880071002387 heme pocket [chemical binding]; other site 880071002388 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 880071002389 PAS domain; Region: PAS_9; pfam13426 880071002390 putative active site [active] 880071002391 heme pocket [chemical binding]; other site 880071002392 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 880071002393 PAS domain; Region: PAS_9; pfam13426 880071002394 putative active site [active] 880071002395 heme pocket [chemical binding]; other site 880071002396 PAS domain S-box; Region: sensory_box; TIGR00229 880071002397 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 880071002398 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 880071002399 PAS domain; Region: PAS_9; pfam13426 880071002400 putative active site [active] 880071002401 heme pocket [chemical binding]; other site 880071002402 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 880071002403 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 880071002404 putative active site [active] 880071002405 heme pocket [chemical binding]; other site 880071002406 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 880071002407 dimer interface [polypeptide binding]; other site 880071002408 phosphorylation site [posttranslational modification] 880071002409 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 880071002410 ATP binding site [chemical binding]; other site 880071002411 Mg2+ binding site [ion binding]; other site 880071002412 G-X-G motif; other site 880071002413 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 880071002414 PAS fold; Region: PAS_3; pfam08447 880071002415 putative active site [active] 880071002416 heme pocket [chemical binding]; other site 880071002417 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 880071002418 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 880071002419 putative active site [active] 880071002420 heme pocket [chemical binding]; other site 880071002421 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 880071002422 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 880071002423 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 880071002424 putative active site [active] 880071002425 heme pocket [chemical binding]; other site 880071002426 PAS fold; Region: PAS_3; pfam08447 880071002427 PAS fold; Region: PAS_3; pfam08447 880071002428 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 880071002429 PAS fold; Region: PAS_3; pfam08447 880071002430 putative active site [active] 880071002431 heme pocket [chemical binding]; other site 880071002432 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 880071002433 dimer interface [polypeptide binding]; other site 880071002434 phosphorylation site [posttranslational modification] 880071002435 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880071002436 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 880071002437 ATP binding site [chemical binding]; other site 880071002438 Mg2+ binding site [ion binding]; other site 880071002439 G-X-G motif; other site 880071002440 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 880071002441 E3 interaction surface; other site 880071002442 lipoyl attachment site [posttranslational modification]; other site 880071002443 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 880071002444 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 880071002445 E3 interaction surface; other site 880071002446 lipoyl attachment site [posttranslational modification]; other site 880071002447 e3 binding domain; Region: E3_binding; pfam02817 880071002448 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 880071002449 gliding motility-associated protein GldC; Region: GldC; TIGR03515 880071002450 TIGR02646 family protein; Region: TIGR02646 880071002451 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880071002452 AAA domain; Region: AAA_21; pfam13304 880071002453 Walker A/P-loop; other site 880071002454 ATP binding site [chemical binding]; other site 880071002455 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 880071002456 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 880071002457 putative active site [active] 880071002458 putative metal binding site [ion binding]; other site 880071002459 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 880071002460 active site residue [active] 880071002461 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 880071002462 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 880071002463 active site 880071002464 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 880071002465 DivIVA domain; Region: DivI1A_domain; TIGR03544 880071002466 Cell division initiation protein [Cell division and chromosome partitioning]; Region: DivIVA; COG3599 880071002467 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 880071002468 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 880071002469 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 880071002470 active site 880071002471 metal binding site [ion binding]; metal-binding site 880071002472 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 880071002473 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 880071002474 Abi-like protein; Region: Abi_2; pfam07751 880071002475 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 880071002476 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 880071002477 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 880071002478 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 880071002479 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylic-acid synthase; Region: menD; TIGR00173 880071002480 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 880071002481 dimer interface [polypeptide binding]; other site 880071002482 tetramer interface [polypeptide binding]; other site 880071002483 PYR/PP interface [polypeptide binding]; other site 880071002484 TPP binding site [chemical binding]; other site 880071002485 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 880071002486 TPP-binding site; other site 880071002487 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 880071002488 tRNA pseudouridine(55) synthase; Region: TruB; TIGR00431 880071002489 RNA binding site [nucleotide binding]; other site 880071002490 active site 880071002491 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 880071002492 active site residue [active] 880071002493 lipoyl synthase; Provisional; Region: PRK05481 880071002494 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 880071002495 FeS/SAM binding site; other site 880071002496 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 880071002497 NAD(P) binding site [chemical binding]; other site 880071002498 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 880071002499 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 880071002500 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 880071002501 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 880071002502 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 880071002503 Walker A/P-loop; other site 880071002504 ATP binding site [chemical binding]; other site 880071002505 Q-loop/lid; other site 880071002506 ABC transporter signature motif; other site 880071002507 Walker B; other site 880071002508 D-loop; other site 880071002509 H-loop/switch region; other site 880071002510 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 880071002511 putative carbohydrate binding site [chemical binding]; other site 880071002512 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 880071002513 Sel1-like repeats; Region: SEL1; smart00671 880071002514 Sel1-like repeats; Region: SEL1; smart00671 880071002515 Sel1-like repeats; Region: SEL1; smart00671 880071002516 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 880071002517 binding surface 880071002518 TPR motif; other site 880071002519 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 880071002520 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 880071002521 FeS/SAM binding site; other site 880071002522 TraB family; Region: TraB; pfam01963 880071002523 This domain family includes the alpha-crystallin domain (ACD) of alpha-crystallin-type small heat shock proteins (sHsps) and a similar domain found in p23-like proteins. sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa; Region: ACD_sHsps_p23-like; cd00298 880071002524 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 880071002525 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880071002526 Peptidase M50B-like; Region: Peptidase_M50B; pfam13398 880071002527 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 880071002528 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 880071002529 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 880071002530 binding surface 880071002531 TPR motif; other site 880071002532 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 880071002533 binding surface 880071002534 TPR motif; other site 880071002535 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 880071002536 binding surface 880071002537 TPR motif; other site 880071002538 TPR repeat; Region: TPR_11; pfam13414 880071002539 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 880071002540 binding surface 880071002541 Tetratricopeptide repeat; Region: TPR_16; pfam13432 880071002542 TPR motif; other site 880071002543 glucose-1-phosphate thymidylylransferase, long form; Region: rmlA_long; TIGR01208 880071002544 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 880071002545 active site 880071002546 Substrate binding site; other site 880071002547 Mg++ binding site; other site 880071002548 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 880071002549 putative trimer interface [polypeptide binding]; other site 880071002550 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 880071002551 putative trimer interface [polypeptide binding]; other site 880071002552 putative CoA binding site [chemical binding]; other site 880071002553 putative CoA binding site [chemical binding]; other site 880071002554 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 880071002555 trimer interface [polypeptide binding]; other site 880071002556 active site 880071002557 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 880071002558 active site 880071002559 catalytic site [active] 880071002560 substrate binding site [chemical binding]; other site 880071002561 Predicted helicase [General function prediction only]; Region: COG4889 880071002562 Predicted helicase [General function prediction only]; Region: COG4889 880071002563 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 880071002564 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 880071002565 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 880071002566 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 880071002567 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 880071002568 Methyltransferase domain; Region: Methyltransf_23; pfam13489 880071002569 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 880071002570 S-adenosylmethionine binding site [chemical binding]; other site 880071002571 ATP-grasp ribosomal peptide maturase, SAV_5884 family; Region: GRASP_SAV_5884; TIGR04187 880071002572 ATP-grasp domain; Region: ATP-grasp_4; cl17255 880071002573 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880071002574 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 880071002575 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 880071002576 active site 880071002577 phosphorylation site [posttranslational modification] 880071002578 intermolecular recognition site; other site 880071002579 dimerization interface [polypeptide binding]; other site 880071002580 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 880071002581 DNA binding site [nucleotide binding] 880071002582 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N_2; pfam13588 880071002583 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 880071002584 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 880071002585 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 880071002586 active site 880071002587 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 880071002588 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 880071002589 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 880071002590 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 880071002591 spermidine synthase; Provisional; Region: PRK00811 880071002592 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 880071002593 Protein of unknown function (DUF3037); Region: DUF3037; pfam11236 880071002594 putative glycosyl transferase; Provisional; Region: PRK10063 880071002595 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 880071002596 metal-binding site 880071002597 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 880071002598 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 880071002599 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 880071002600 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 880071002601 active site 880071002602 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 880071002603 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 880071002604 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 880071002605 Domain of unknown function (DUF4174); Region: DUF4174; pfam13778 880071002606 Protein of unknown function DUF86; Region: DUF86; cl01031 880071002607 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 880071002608 o-succinylbenzoate synthase; Region: menC_gamma/gm+; TIGR01927 880071002609 active site 880071002610 Domain of unknown function (DUF1768); Region: DUF1768; pfam08719 880071002611 Methyltransferase domain; Region: Methyltransf_31; pfam13847 880071002612 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 880071002613 S-adenosylmethionine binding site [chemical binding]; other site 880071002614 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 880071002615 B12 binding site [chemical binding]; other site 880071002616 cobalt ligand [ion binding]; other site 880071002617 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 880071002618 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 880071002619 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 880071002620 Protein of unknown function (DUF1838); Region: DUF1838; pfam08894 880071002621 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 880071002622 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 880071002623 active site 880071002624 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 880071002625 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880071002626 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 880071002627 DNA binding residues [nucleotide binding] 880071002628 Protein of unknown function (DUF1697); Region: DUF1697; pfam08002 880071002629 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 880071002630 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 880071002631 Sulfate transporter family; Region: Sulfate_transp; pfam00916 880071002632 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 880071002633 biotin synthase; Region: bioB; TIGR00433 880071002634 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 880071002635 FeS/SAM binding site; other site 880071002636 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 880071002637 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 880071002638 Domain of unknown function (DUF427); Region: DUF427; pfam04248 880071002639 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 880071002640 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 880071002641 substrate binding site [chemical binding]; other site 880071002642 active site 880071002643 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 880071002644 Cytochrome C assembly protein; Region: Cytochrom_C_asm; pfam01578 880071002645 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 880071002646 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 880071002647 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 880071002648 protein binding site [polypeptide binding]; other site 880071002649 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 880071002650 protein binding site [polypeptide binding]; other site 880071002651 HTH domain; Region: HTH_11; cl17392 880071002652 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 880071002653 substrate interface [chemical binding]; other site 880071002654 bacteriocin biosynthesis cyclodehydratase domain; Region: cyclo_dehyd_2; TIGR03882 880071002655 YcaO-like family; Region: YcaO; pfam02624 880071002656 thiazole/oxazole-forming peptide maturase, SagD family component; Region: TOMM_cyclo_SagD; TIGR03604 880071002657 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 880071002658 putative FMN binding site [chemical binding]; other site 880071002659 NADPH bind site [chemical binding]; other site 880071002660 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 880071002661 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 880071002662 Walker A/P-loop; other site 880071002663 ATP binding site [chemical binding]; other site 880071002664 Q-loop/lid; other site 880071002665 ABC transporter signature motif; other site 880071002666 Walker B; other site 880071002667 D-loop; other site 880071002668 H-loop/switch region; other site 880071002669 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880071002670 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 880071002671 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 880071002672 Two component regulator propeller; Region: Reg_prop; pfam07494 880071002673 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 880071002674 GAF domain; Region: GAF_3; pfam13492 880071002675 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 880071002676 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880071002677 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 880071002678 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 880071002679 Coenzyme A binding pocket [chemical binding]; other site 880071002680 Domain of unknown function (DUF4293); Region: DUF4293; pfam14126 880071002681 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 880071002682 active site 880071002683 dimer interface [polypeptide binding]; other site 880071002684 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 880071002685 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 880071002686 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 880071002687 O-Antigen ligase; Region: Wzy_C; pfam04932 880071002688 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 880071002689 TPR repeat; Region: TPR_11; pfam13414 880071002690 binding surface 880071002691 TPR motif; other site 880071002692 carboxy-terminal protease; Provisional; Region: PRK11186 880071002693 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 880071002694 protein binding site [polypeptide binding]; other site 880071002695 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 880071002696 Catalytic dyad [active] 880071002697 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 880071002698 urocanate hydratase; Provisional; Region: PRK05414 880071002699 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; cl00470 880071002700 Restriction endonuclease HincII; Region: Endonuc-HincII; pfam09226 880071002701 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 880071002702 S-adenosylmethionine binding site [chemical binding]; other site 880071002703 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 880071002704 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 880071002705 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 880071002706 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 880071002707 DHH family; Region: DHH; pfam01368 880071002708 DHHA1 domain; Region: DHHA1; pfam02272 880071002709 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 880071002710 Uncharacterized protein conserved in bacteria containing a pentein-type domain [Function unknown]; Region: COG4874 880071002711 Amidinotransferase; Region: Amidinotransf; pfam02274 880071002712 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 880071002713 Amidinotransferase; Region: Amidinotransf; cl12043 880071002714 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 880071002715 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 880071002716 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 880071002717 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 880071002718 AAA domain; Region: AAA_21; pfam13304 880071002719 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 880071002720 Electron transfer DM13; Region: DM13; pfam10517 880071002721 Methyltransferase domain; Region: Methyltransf_31; pfam13847 880071002722 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 880071002723 S-adenosylmethionine binding site [chemical binding]; other site 880071002724 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880071002725 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 880071002726 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 880071002727 DDE superfamily endonuclease; Region: DDE_4; cl17710 880071002728 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 880071002729 Putative methyltransferase; Region: Methyltransf_4; cl17290 880071002730 Bacterial PH domain; Region: DUF304; pfam03703 880071002731 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 880071002732 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 880071002733 putative active site [active] 880071002734 putative metal binding site [ion binding]; other site 880071002735 Acyltransferase family; Region: Acyl_transf_3; pfam01757 880071002736 hypothetical protein; Provisional; Region: PRK08609 880071002737 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 880071002738 metal binding triad [ion binding]; metal-binding site 880071002739 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 880071002740 active site 880071002741 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 880071002742 Uncharacterized conserved protein [Function unknown]; Region: COG1262 880071002743 TPR repeat; Region: TPR_11; pfam13414 880071002744 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 880071002745 binding surface 880071002746 TPR motif; other site 880071002747 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 880071002748 binding surface 880071002749 TPR motif; other site 880071002750 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 880071002751 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 880071002752 FOG: CBS domain [General function prediction only]; Region: COG0517 880071002753 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 880071002754 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 880071002755 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 880071002756 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 880071002757 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 880071002758 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880071002759 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 880071002760 ATP binding site [chemical binding]; other site 880071002761 Mg2+ binding site [ion binding]; other site 880071002762 G-X-G motif; other site 880071002763 Response regulator receiver domain; Region: Response_reg; pfam00072 880071002764 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 880071002765 active site 880071002766 phosphorylation site [posttranslational modification] 880071002767 intermolecular recognition site; other site 880071002768 dimerization interface [polypeptide binding]; other site 880071002769 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; cl17315 880071002770 DNA binding residues [nucleotide binding] 880071002771 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 880071002772 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 880071002773 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 880071002774 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 880071002775 protoheme IX farnesyltransferase; Region: cyoE_ctaB; TIGR01473 880071002776 UbiA prenyltransferase family; Region: UbiA; pfam01040 880071002777 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 880071002778 Subunit I/III interface [polypeptide binding]; other site 880071002779 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 880071002780 TPR motif; other site 880071002781 binding surface 880071002782 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 880071002783 RIP metalloprotease RseP; Region: TIGR00054 880071002784 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 880071002785 active site 880071002786 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 880071002787 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 880071002788 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 880071002789 putative substrate binding region [chemical binding]; other site 880071002790 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 880071002791 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 880071002792 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 880071002793 Beta-lactamase; Region: Beta-lactamase; cl17358 880071002794 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 880071002795 Vacuole effluxer Atg22 like; Region: ATG22; pfam11700 880071002796 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 880071002797 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; cl17304 880071002798 putative carbohydrate kinase; Provisional; Region: PRK10565 880071002799 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 880071002800 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 880071002801 putative substrate binding site [chemical binding]; other site 880071002802 putative ATP binding site [chemical binding]; other site 880071002803 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880071002804 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 880071002805 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 880071002806 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 880071002807 aminodeoxychorismate synthase, component I, clade 2; Region: PabB-clade2; TIGR01824 880071002808 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 880071002809 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 880071002810 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 880071002811 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 880071002812 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 880071002813 Leucine rich repeat; Region: LRR_8; pfam13855 880071002814 Substrate binding site [chemical binding]; other site 880071002815 Leucine rich repeat; Region: LRR_8; pfam13855 880071002816 Leucine rich repeat; Region: LRR_8; pfam13855 880071002817 Leucine rich repeat; Region: LRR_8; pfam13855 880071002818 Leucine rich repeat; Region: LRR_8; pfam13855 880071002819 Leucine rich repeat; Region: LRR_8; pfam13855 880071002820 Leucine rich repeat; Region: LRR_8; pfam13855 880071002821 Leucine rich repeat; Region: LRR_8; pfam13855 880071002822 Immunoglobulin like; Region: IG_like; smart00410 880071002823 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 880071002824 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 880071002825 putative active site [active] 880071002826 translation initiation factor IF-2; Region: IF-2; TIGR00487 880071002827 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 880071002828 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 880071002829 G1 box; other site 880071002830 putative GEF interaction site [polypeptide binding]; other site 880071002831 GTP/Mg2+ binding site [chemical binding]; other site 880071002832 Switch I region; other site 880071002833 G2 box; other site 880071002834 G3 box; other site 880071002835 Switch II region; other site 880071002836 G4 box; other site 880071002837 G5 box; other site 880071002838 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 880071002839 Translation-initiation factor 2; Region: IF-2; pfam11987 880071002840 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 880071002841 transcription termination factor NusA; Region: NusA; TIGR01953 880071002842 NusA N-terminal domain; Region: NusA_N; pfam08529 880071002843 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 880071002844 RNA binding site [nucleotide binding]; other site 880071002845 homodimer interface [polypeptide binding]; other site 880071002846 NusA-like KH domain; Region: KH_5; pfam13184 880071002847 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 880071002848 G-X-X-G motif; other site 880071002849 Sm and related proteins; Region: Sm_like; cl00259 880071002850 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 880071002851 dimer interface [polypeptide binding]; other site 880071002852 phosphorylation site [posttranslational modification] 880071002853 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880071002854 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 880071002855 ATP binding site [chemical binding]; other site 880071002856 Mg2+ binding site [ion binding]; other site 880071002857 G-X-G motif; other site 880071002858 PAS domain; Region: PAS_9; pfam13426 880071002859 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 880071002860 PAS domain; Region: PAS_9; pfam13426 880071002861 putative active site [active] 880071002862 heme pocket [chemical binding]; other site 880071002863 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 880071002864 dimer interface [polypeptide binding]; other site 880071002865 phosphorylation site [posttranslational modification] 880071002866 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880071002867 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 880071002868 ATP binding site [chemical binding]; other site 880071002869 Mg2+ binding site [ion binding]; other site 880071002870 G-X-G motif; other site 880071002871 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 880071002872 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 880071002873 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 880071002874 dimer interface [polypeptide binding]; other site 880071002875 phosphorylation site [posttranslational modification] 880071002876 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880071002877 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 880071002878 ATP binding site [chemical binding]; other site 880071002879 Mg2+ binding site [ion binding]; other site 880071002880 G-X-G motif; other site 880071002881 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 880071002882 dimer interface [polypeptide binding]; other site 880071002883 phosphorylation site [posttranslational modification] 880071002884 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880071002885 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 880071002886 ATP binding site [chemical binding]; other site 880071002887 Mg2+ binding site [ion binding]; other site 880071002888 G-X-G motif; other site 880071002889 Response regulator receiver domain; Region: Response_reg; pfam00072 880071002890 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 880071002891 active site 880071002892 phosphorylation site [posttranslational modification] 880071002893 intermolecular recognition site; other site 880071002894 dimerization interface [polypeptide binding]; other site 880071002895 PAS fold; Region: PAS_3; pfam08447 880071002896 PAS fold; Region: PAS_3; pfam08447 880071002897 PAS domain S-box; Region: sensory_box; TIGR00229 880071002898 PAS fold; Region: PAS_3; pfam08447 880071002899 PAS domain; Region: PAS_9; pfam13426 880071002900 PAS fold; Region: PAS_3; pfam08447 880071002901 PAS domain; Region: PAS_9; pfam13426 880071002902 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 880071002903 dimer interface [polypeptide binding]; other site 880071002904 phosphorylation site [posttranslational modification] 880071002905 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880071002906 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 880071002907 ATP binding site [chemical binding]; other site 880071002908 Mg2+ binding site [ion binding]; other site 880071002909 G-X-G motif; other site 880071002910 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 880071002911 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 880071002912 active site 880071002913 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 880071002914 phosphorylation site [posttranslational modification] 880071002915 intermolecular recognition site; other site 880071002916 dimerization interface [polypeptide binding]; other site 880071002917 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880071002918 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 880071002919 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 880071002920 active site 880071002921 phosphorylation site [posttranslational modification] 880071002922 intermolecular recognition site; other site 880071002923 dimerization interface [polypeptide binding]; other site 880071002924 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880071002925 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 880071002926 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 880071002927 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 880071002928 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 880071002929 putative NADP binding site [chemical binding]; other site 880071002930 putative substrate binding site [chemical binding]; other site 880071002931 active site 880071002932 malate dehydrogenase; Reviewed; Region: PRK06223 880071002933 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 880071002934 dimer interface [polypeptide binding]; other site 880071002935 NAD(P) binding site [chemical binding]; other site 880071002936 tetramer (dimer of dimers) interface [polypeptide binding]; other site 880071002937 substrate binding site [chemical binding]; other site 880071002938 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 880071002939 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 880071002940 Walker A/P-loop; other site 880071002941 ATP binding site [chemical binding]; other site 880071002942 Q-loop/lid; other site 880071002943 ABC transporter signature motif; other site 880071002944 Walker B; other site 880071002945 D-loop; other site 880071002946 H-loop/switch region; other site 880071002947 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 880071002948 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 880071002949 Domain of unknown function (DUF3526); Region: DUF3526; pfam12040 880071002950 Domain of unknown function (DUF3526); Region: DUF3526; pfam12040 880071002951 Protein of unknown function (DUF1826); Region: DUF1826; pfam08856 880071002952 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 880071002953 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 880071002954 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 880071002955 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 880071002956 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880071002957 NAD(P) binding site [chemical binding]; other site 880071002958 active site 880071002959 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 880071002960 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 880071002961 active site 880071002962 HIGH motif; other site 880071002963 KMSKS motif; other site 880071002964 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 880071002965 tRNA binding surface [nucleotide binding]; other site 880071002966 anticodon binding site; other site 880071002967 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 880071002968 dimer interface [polypeptide binding]; other site 880071002969 putative tRNA-binding site [nucleotide binding]; other site 880071002970 Domain of unknown function (DUF4291); Region: DUF4291; pfam14124 880071002971 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 880071002972 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 880071002973 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 880071002974 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 880071002975 NADP binding site [chemical binding]; other site 880071002976 homopentamer interface [polypeptide binding]; other site 880071002977 substrate binding site [chemical binding]; other site 880071002978 active site 880071002979 rod shape-determining protein MreC; Provisional; Region: PRK13922 880071002980 rod shape-determining protein MreC; Region: MreC; pfam04085 880071002981 rod shape-determining protein MreB; Provisional; Region: PRK13927 880071002982 MreB and similar proteins; Region: MreB_like; cd10225 880071002983 nucleotide binding site [chemical binding]; other site 880071002984 Mg binding site [ion binding]; other site 880071002985 putative protofilament interaction site [polypeptide binding]; other site 880071002986 RodZ interaction site [polypeptide binding]; other site 880071002987 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 880071002988 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 880071002989 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 880071002990 Walker A/P-loop; other site 880071002991 ATP binding site [chemical binding]; other site 880071002992 Q-loop/lid; other site 880071002993 ABC transporter signature motif; other site 880071002994 Walker B; other site 880071002995 D-loop; other site 880071002996 H-loop/switch region; other site 880071002997 phytoene desaturase; Region: crtI_fam; TIGR02734 880071002998 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 880071002999 NAD+ synthase (glutamine-hydrolysing); Region: PLN02339 880071003000 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 880071003001 multimer interface [polypeptide binding]; other site 880071003002 active site 880071003003 catalytic triad [active] 880071003004 protein interface 1 [polypeptide binding]; other site 880071003005 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 880071003006 homodimer interface [polypeptide binding]; other site 880071003007 NAD binding pocket [chemical binding]; other site 880071003008 ATP binding pocket [chemical binding]; other site 880071003009 Mg binding site [ion binding]; other site 880071003010 active-site loop [active] 880071003011 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 880071003012 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 880071003013 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 880071003014 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 880071003015 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 880071003016 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 880071003017 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880071003018 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 880071003019 dimer interface [polypeptide binding]; other site 880071003020 phosphorylation site [posttranslational modification] 880071003021 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 880071003022 ATP binding site [chemical binding]; other site 880071003023 Mg2+ binding site [ion binding]; other site 880071003024 G-X-G motif; other site 880071003025 Uncharacterized conserved protein [Function unknown]; Region: COG0398 880071003026 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 880071003027 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 880071003028 Rhomboid family; Region: Rhomboid; cl11446 880071003029 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 880071003030 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 880071003031 CoenzymeA binding site [chemical binding]; other site 880071003032 subunit interaction site [polypeptide binding]; other site 880071003033 PHB binding site; other site 880071003034 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 880071003035 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 880071003036 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 880071003037 phosphodiesterase; Provisional; Region: PRK12704 880071003038 KH domain; Region: KH_1; pfam00013 880071003039 nucleic acid binding region [nucleotide binding]; other site 880071003040 G-X-X-G motif; other site 880071003041 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 880071003042 Zn2+ binding site [ion binding]; other site 880071003043 Mg2+ binding site [ion binding]; other site 880071003044 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 880071003045 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 880071003046 mobile mystery protein B; Region: mob_myst_B; TIGR02613 880071003047 Fic/DOC family; Region: Fic; pfam02661 880071003048 mobile mystery protein A; Region: mob_myst_A; TIGR02612 880071003049 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 880071003050 non-specific DNA binding site [nucleotide binding]; other site 880071003051 salt bridge; other site 880071003052 sequence-specific DNA binding site [nucleotide binding]; other site 880071003053 phosphoserine phosphatase SerB; Region: serB; TIGR00338 880071003054 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 880071003055 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 880071003056 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 880071003057 ligand binding site [chemical binding]; other site 880071003058 NAD binding site [chemical binding]; other site 880071003059 tetramer interface [polypeptide binding]; other site 880071003060 catalytic site [active] 880071003061 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 880071003062 L-serine binding site [chemical binding]; other site 880071003063 ACT domain interface; other site 880071003064 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 880071003065 GAF domain; Region: GAF_2; pfam13185 880071003066 Outer membrane efflux protein; Region: OEP; pfam02321 880071003067 Outer membrane efflux protein; Region: OEP; pfam02321 880071003068 AAA domain; Region: AAA_21; pfam13304 880071003069 RloB-like protein; Region: RloB; pfam13707 880071003070 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 880071003071 Uncharacterized conserved protein [Function unknown]; Region: COG4850 880071003072 Uncharacterized conserved protein (DUF2183); Region: DUF2183; pfam09949 880071003073 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 880071003074 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 880071003075 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 880071003076 Walker A motif; other site 880071003077 ATP binding site [chemical binding]; other site 880071003078 Walker B motif; other site 880071003079 arginine finger; other site 880071003080 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 880071003081 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 880071003082 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 880071003083 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 880071003084 PYR/PP interface [polypeptide binding]; other site 880071003085 dimer interface [polypeptide binding]; other site 880071003086 TPP binding site [chemical binding]; other site 880071003087 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 880071003088 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 880071003089 TPP-binding site [chemical binding]; other site 880071003090 dimer interface [polypeptide binding]; other site 880071003091 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 880071003092 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 880071003093 putative valine binding site [chemical binding]; other site 880071003094 dimer interface [polypeptide binding]; other site 880071003095 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 880071003096 ketol-acid reductoisomerase; Validated; Region: PRK05225 880071003097 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 880071003098 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 880071003099 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 880071003100 threonine dehydratase; Validated; Region: PRK08639 880071003101 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 880071003102 tetramer interface [polypeptide binding]; other site 880071003103 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880071003104 catalytic residue [active] 880071003105 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 880071003106 putative Ile/Val binding site [chemical binding]; other site 880071003107 short chain dehydrogenase; Provisional; Region: PRK06500 880071003108 classical (c) SDRs; Region: SDR_c; cd05233 880071003109 NAD(P) binding site [chemical binding]; other site 880071003110 active site 880071003111 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 880071003112 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 880071003113 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880071003114 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 880071003115 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 880071003116 N-terminal plug; other site 880071003117 ligand-binding site [chemical binding]; other site 880071003118 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 880071003119 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 880071003120 NAD binding site [chemical binding]; other site 880071003121 substrate binding site [chemical binding]; other site 880071003122 homodimer interface [polypeptide binding]; other site 880071003123 active site 880071003124 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 880071003125 dimer interface [polypeptide binding]; other site 880071003126 phosphorylation site [posttranslational modification] 880071003127 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 880071003128 ATP binding site [chemical binding]; other site 880071003129 Mg2+ binding site [ion binding]; other site 880071003130 G-X-G motif; other site 880071003131 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 880071003132 glucose-1-phosphate thymidylylransferase, long form; Region: rmlA_long; TIGR01208 880071003133 active site 880071003134 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 880071003135 putative CoA binding site [chemical binding]; other site 880071003136 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880071003137 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880071003138 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880071003139 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 880071003140 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 880071003141 starch binding outer membrane protein SusD; Region: SusD; cl17845 880071003142 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880071003143 NAD(P) binding site [chemical binding]; other site 880071003144 active site 880071003145 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 880071003146 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 880071003147 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 880071003148 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 880071003149 Walker A motif; other site 880071003150 ATP binding site [chemical binding]; other site 880071003151 Walker B motif; other site 880071003152 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 880071003153 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 880071003154 catalytic residue [active] 880071003155 gliding motility-associated lipoprotein GldJ; Region: GldJ; TIGR03524 880071003156 gliding motility-associated lipoprotein GldJ; Region: GldJ_short; TIGR03530 880071003157 gliding motility-associated lipoprotein GldJ; Region: GldJ; TIGR03524 880071003158 Vitamin K-dependent gamma-carboxylase; Region: VKG_Carbox; cl02773 880071003159 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 880071003160 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880071003161 Signal peptidase I [Intracellular trafficking and secretion]; Region: LepB; COG0681 880071003162 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 880071003163 Catalytic site [active] 880071003164 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 880071003165 Catalytic site [active] 880071003166 TIR domain; Region: TIR_2; pfam13676 880071003167 TIR domain; Region: TIR_2; pfam13676 880071003168 TIR domain; Region: TIR_2; pfam13676 880071003169 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 880071003170 active site 880071003171 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 880071003172 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880071003173 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 880071003174 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 880071003175 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 880071003176 homotetramer interface [polypeptide binding]; other site 880071003177 ligand binding site [chemical binding]; other site 880071003178 catalytic site [active] 880071003179 NAD binding site [chemical binding]; other site 880071003180 Hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). These enzymes belong to the peptidase family M52. Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing...; Region: H2MP; cl00477 880071003181 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 880071003182 metal ion-dependent adhesion site (MIDAS); other site 880071003183 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 880071003184 Clp amino terminal domain; Region: Clp_N; pfam02861 880071003185 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 880071003186 Walker A motif; other site 880071003187 ATP binding site [chemical binding]; other site 880071003188 Walker B motif; other site 880071003189 arginine finger; other site 880071003190 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 880071003191 Walker A motif; other site 880071003192 ATP binding site [chemical binding]; other site 880071003193 Walker B motif; other site 880071003194 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 880071003195 ParB-like nuclease domain; Region: ParBc; pfam02195 880071003196 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 880071003197 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; cl17774 880071003198 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880071003199 AAA domain; Region: AAA_21; pfam13304 880071003200 Walker A/P-loop; other site 880071003201 ATP binding site [chemical binding]; other site 880071003202 Q-loop/lid; other site 880071003203 Peptidase C25 family N-terminal domain, found in Arg-gingipain (Rgp), Lys-gingipain (Kgp) and related proteins; Region: Peptidase_C25_N; cd02258 880071003204 active site 880071003205 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 880071003206 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 880071003207 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 880071003208 BON domain; Region: BON; pfam04972 880071003209 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 880071003210 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 880071003211 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 880071003212 ligand binding site [chemical binding]; other site 880071003213 flexible hinge region; other site 880071003214 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 880071003215 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 880071003216 dimer interface [polypeptide binding]; other site 880071003217 active site 880071003218 glycine-pyridoxal phosphate binding site [chemical binding]; other site 880071003219 folate binding site [chemical binding]; other site 880071003220 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 880071003221 CoenzymeA binding site [chemical binding]; other site 880071003222 subunit interaction site [polypeptide binding]; other site 880071003223 PHB binding site; other site 880071003224 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 880071003225 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 880071003226 Protein tyrosine phosphatase, catalytic domain motif; Region: PTPc_motif; smart00404 880071003227 active site 880071003228 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 880071003229 active site 880071003230 dimer interface [polypeptide binding]; other site 880071003231 metal binding site [ion binding]; metal-binding site 880071003232 GAF domain; Region: GAF_2; pfam13185 880071003233 GAF domain; Region: GAF_3; pfam13492 880071003234 PAS domain; Region: PAS_9; pfam13426 880071003235 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 880071003236 putative active site [active] 880071003237 heme pocket [chemical binding]; other site 880071003238 Winged helix-turn helix; Region: HTH_29; pfam13551 880071003239 Helix-turn-helix domain; Region: HTH_28; pfam13518 880071003240 Winged helix-turn helix; Region: HTH_33; pfam13592 880071003241 DDE superfamily endonuclease; Region: DDE_3; pfam13358 880071003242 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 880071003243 RecX family; Region: RecX; pfam02631 880071003244 Family of unknown function (DUF490); Region: DUF490; pfam04357 880071003245 Family of unknown function (DUF490); Region: DUF490; pfam04357 880071003246 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 880071003247 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 880071003248 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 880071003249 protein binding site [polypeptide binding]; other site 880071003250 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 880071003251 primosomal protein N' Region: priA; TIGR00595 880071003252 ATP binding site [chemical binding]; other site 880071003253 putative Mg++ binding site [ion binding]; other site 880071003254 FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1; Region: FYVE; cl17764 880071003255 Zn binding sites [ion binding]; other site 880071003256 phosphatidylinositol 3-phosphate binding site [chemical binding]; other site 880071003257 helicase superfamily c-terminal domain; Region: HELICc; smart00490 880071003258 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 880071003259 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880071003260 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 880071003261 DNA binding residues [nucleotide binding] 880071003262 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 880071003263 active site lid residues [active] 880071003264 substrate binding pocket [chemical binding]; other site 880071003265 catalytic residues [active] 880071003266 substrate-Mg2+ binding site; other site 880071003267 aspartate-rich region 1; other site 880071003268 aspartate-rich region 2; other site 880071003269 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 880071003270 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 880071003271 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 880071003272 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 880071003273 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 880071003274 FeS/SAM binding site; other site 880071003275 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 880071003276 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 880071003277 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 880071003278 Major Facilitator Superfamily; Region: MFS_1; pfam07690 880071003279 TPR repeat; Region: TPR_11; pfam13414 880071003280 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 880071003281 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 880071003282 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 880071003283 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 880071003284 ligand binding site [chemical binding]; other site 880071003285 bifunctional UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase/(3R)-hydroxymyristoyl-[acyl-carrier-protein] dehydratase; Reviewed; Region: PRK13188 880071003286 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 880071003287 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 880071003288 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 880071003289 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 880071003290 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 880071003291 trimer interface [polypeptide binding]; other site 880071003292 active site 880071003293 UDP-GlcNAc binding site [chemical binding]; other site 880071003294 lipid binding site [chemical binding]; lipid-binding site 880071003295 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 880071003296 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 880071003297 homodimer interface [polypeptide binding]; other site 880071003298 metal binding site [ion binding]; metal-binding site 880071003299 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 880071003300 homodimer interface [polypeptide binding]; other site 880071003301 active site 880071003302 putative chemical substrate binding site [chemical binding]; other site 880071003303 metal binding site [ion binding]; metal-binding site 880071003304 MoxR-like ATPases [General function prediction only]; Region: COG0714 880071003305 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 880071003306 Walker A motif; other site 880071003307 ATP binding site [chemical binding]; other site 880071003308 Walker B motif; other site 880071003309 arginine finger; other site 880071003310 Uncharacterized conserved protein [Function unknown]; Region: COG4279 880071003311 SWIM zinc finger; Region: SWIM; pfam04434 880071003312 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 880071003313 SNF2 Helicase protein; Region: DUF3670; pfam12419 880071003314 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 880071003315 ATP binding site [chemical binding]; other site 880071003316 putative Mg++ binding site [ion binding]; other site 880071003317 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 880071003318 nucleotide binding region [chemical binding]; other site 880071003319 ATP-binding site [chemical binding]; other site 880071003320 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 880071003321 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 880071003322 catalytic residues [active] 880071003323 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 880071003324 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 880071003325 active site 880071003326 metal binding site [ion binding]; metal-binding site 880071003327 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 880071003328 dihydropteroate synthase; Region: DHPS; TIGR01496 880071003329 substrate binding pocket [chemical binding]; other site 880071003330 dimer interface [polypeptide binding]; other site 880071003331 inhibitor binding site; inhibition site 880071003332 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 880071003333 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 880071003334 dimerization interface [polypeptide binding]; other site 880071003335 active site 880071003336 metal binding site [ion binding]; metal-binding site 880071003337 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 880071003338 dsRNA binding site [nucleotide binding]; other site 880071003339 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 880071003340 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 880071003341 dimer interface [polypeptide binding]; other site 880071003342 active site 880071003343 acyl carrier protein; Provisional; Region: acpP; PRK00982 880071003344 Domain of unknown function (DUF4343); Region: DUF4343; pfam14243 880071003345 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 880071003346 active site 880071003347 putative bifunctional UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase/alanine racemase; Provisional; Region: PRK11930 880071003348 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 880071003349 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 880071003350 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 880071003351 active site 880071003352 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 880071003353 dimer interface [polypeptide binding]; other site 880071003354 substrate binding site [chemical binding]; other site 880071003355 catalytic residues [active] 880071003356 Macro domain, Poa1p_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Poa1p_like; cd02901 880071003357 ADP-ribose binding site [chemical binding]; other site 880071003358 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 880071003359 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 880071003360 ATP-grasp domain; Region: ATP-grasp_4; cl17255 880071003361 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 880071003362 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; smart01096 880071003363 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 880071003364 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 880071003365 ATP-grasp domain; Region: ATP-grasp_4; cl17255 880071003366 GAF domain; Region: GAF_3; pfam13492 880071003367 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 880071003368 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880071003369 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 880071003370 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 880071003371 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 880071003372 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 880071003373 Ligand binding site; other site 880071003374 Putative Catalytic site; other site 880071003375 DXD motif; other site 880071003376 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 880071003377 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 880071003378 Coenzyme A binding pocket [chemical binding]; other site 880071003379 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 880071003380 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 880071003381 inhibitor-cofactor binding pocket; inhibition site 880071003382 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880071003383 catalytic residue [active] 880071003384 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 880071003385 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 880071003386 active site 880071003387 Zn binding site [ion binding]; other site 880071003388 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 880071003389 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 880071003390 active site 880071003391 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 880071003392 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 880071003393 cofactor binding site; other site 880071003394 DNA binding site [nucleotide binding] 880071003395 substrate interaction site [chemical binding]; other site 880071003396 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 880071003397 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 880071003398 substrate binding pocket [chemical binding]; other site 880071003399 chain length determination region; other site 880071003400 substrate-Mg2+ binding site; other site 880071003401 catalytic residues [active] 880071003402 aspartate-rich region 1; other site 880071003403 active site lid residues [active] 880071003404 aspartate-rich region 2; other site 880071003405 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 880071003406 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 880071003407 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 880071003408 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 880071003409 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 880071003410 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 880071003411 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 880071003412 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 880071003413 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 880071003414 Surface antigen; Region: Bac_surface_Ag; pfam01103 880071003415 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 880071003416 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 880071003417 catalytic residue [active] 880071003418 putative FPP diphosphate binding site; other site 880071003419 putative FPP binding hydrophobic cleft; other site 880071003420 dimer interface [polypeptide binding]; other site 880071003421 putative IPP diphosphate binding site; other site 880071003422 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880071003423 Bacterial Ig-like domain; Region: Big_5; pfam13205 880071003424 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 880071003425 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 880071003426 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 880071003427 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880071003428 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 880071003429 active site 880071003430 catalytic motif [active] 880071003431 Zn binding site [ion binding]; other site 880071003432 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 880071003433 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 880071003434 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 880071003435 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 880071003436 active site 880071003437 substrate binding site [chemical binding]; other site 880071003438 metal binding site [ion binding]; metal-binding site 880071003439 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 880071003440 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 880071003441 Family description; Region: UvrD_C_2; pfam13538 880071003442 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 880071003443 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 880071003444 active site 880071003445 dimer interface [polypeptide binding]; other site 880071003446 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 880071003447 Ligand Binding Site [chemical binding]; other site 880071003448 Molecular Tunnel; other site 880071003449 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 880071003450 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 880071003451 putative metal binding site; other site 880071003452 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 880071003453 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 880071003454 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880071003455 transcription antitermination factor NusB; Region: nusB; TIGR01951 880071003456 YtxH-like protein; Region: YtxH; pfam12732 880071003457 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 880071003458 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 880071003459 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 880071003460 active site 880071003461 metal binding site [ion binding]; metal-binding site 880071003462 DNA binding site [nucleotide binding] 880071003463 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 880071003464 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 880071003465 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 880071003466 domain interfaces; other site 880071003467 active site 880071003468 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 880071003469 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 880071003470 active site 880071003471 phosphorylation site [posttranslational modification] 880071003472 intermolecular recognition site; other site 880071003473 dimerization interface [polypeptide binding]; other site 880071003474 LytTr DNA-binding domain; Region: LytTR; smart00850 880071003475 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 880071003476 Lumazine binding domain; Region: Lum_binding; pfam00677 880071003477 Lumazine binding domain; Region: Lum_binding; pfam00677 880071003478 Possible plasma membrane-binding motif in junctophilins, PIP-5-kinases and protein kinases; Region: MORN; smart00698 880071003479 Fas apoptotic inhibitory molecule (FAIM1); Region: FAIM1; pfam06905 880071003480 Possible plasma membrane-binding motif in junctophilins, PIP-5-kinases and protein kinases; Region: MORN; smart00698 880071003481 Repeats in polycystic kidney disease 1 (PKD1) and other proteins; Region: PKD; smart00089 880071003482 C-terminal domain of CHU protein family; Region: CHU_C; cl17875 880071003483 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880071003484 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 880071003485 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 880071003486 RNA polymerase sigma factor, TIGR02999 family; Region: Sig-70_X6 880071003487 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 880071003488 DNA binding residues [nucleotide binding] 880071003489 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 880071003490 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 880071003491 UGMP family protein; Validated; Region: PRK09604 880071003492 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 880071003493 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 880071003494 active site 880071003495 HIGH motif; other site 880071003496 nucleotide binding site [chemical binding]; other site 880071003497 active site 880071003498 KMSKS motif; other site 880071003499 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 880071003500 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 880071003501 N-terminal plug; other site 880071003502 ligand-binding site [chemical binding]; other site 880071003503 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 880071003504 Mechanosensitive ion channel; Region: MS_channel; pfam00924 880071003505 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 880071003506 homodimer interface [polypeptide binding]; other site 880071003507 metal binding site [ion binding]; metal-binding site 880071003508 Uncharacterized protein conserved in bacteria (DUF2317); Region: DUF2317; pfam10079 880071003509 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4365 880071003510 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 880071003511 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 880071003512 active site 880071003513 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 880071003514 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 880071003515 non-specific DNA binding site [nucleotide binding]; other site 880071003516 salt bridge; other site 880071003517 sequence-specific DNA binding site [nucleotide binding]; other site 880071003518 Domain of unknown function (DUF955); Region: DUF955; cl01076 880071003519 ribonucleoside--diphosphate reductase large subunit; Region: PLN02437 880071003520 ATP cone domain; Region: ATP-cone; pfam03477 880071003521 Class I ribonucleotide reductase; Region: RNR_I; cd01679 880071003522 active site 880071003523 dimer interface [polypeptide binding]; other site 880071003524 catalytic residues [active] 880071003525 effector binding site; other site 880071003526 R2 peptide binding site; other site 880071003527 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 880071003528 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 880071003529 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 880071003530 S-adenosylmethionine binding site [chemical binding]; other site 880071003531 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 880071003532 protein binding site [polypeptide binding]; other site 880071003533 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 880071003534 Malic enzyme, N-terminal domain; Region: malic; pfam00390 880071003535 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 880071003536 putative NAD(P) binding site [chemical binding]; other site 880071003537 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 880071003538 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 880071003539 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 880071003540 catalytic residues [active] 880071003541 competence damage-inducible protein A; Provisional; Region: PRK00549 880071003542 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 880071003543 putative MPT binding site; other site 880071003544 Competence-damaged protein; Region: CinA; pfam02464 880071003545 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 880071003546 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 880071003547 Surface antigen; Region: Bac_surface_Ag; pfam01103 880071003548 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 880071003549 Peptidase family M50; Region: Peptidase_M50; pfam02163 880071003550 active site 880071003551 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 880071003552 putative substrate binding region [chemical binding]; other site 880071003553 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 880071003554 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 880071003555 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 880071003556 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 880071003557 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 880071003558 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 880071003559 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 880071003560 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 880071003561 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 880071003562 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 880071003563 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 880071003564 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 880071003565 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 880071003566 active site 880071003567 nucleophile elbow; other site 880071003568 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 880071003569 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 880071003570 Predicted flavoprotein [General function prediction only]; Region: COG0431 880071003571 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 880071003572 Tetratricopeptide repeat; Region: TPR_16; pfam13432 880071003573 Bacterial SH3 domain; Region: SH3_3; pfam08239 880071003574 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 880071003575 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 880071003576 tetramer interface [polypeptide binding]; other site 880071003577 TPP-binding site [chemical binding]; other site 880071003578 heterodimer interface [polypeptide binding]; other site 880071003579 phosphorylation loop region [posttranslational modification] 880071003580 chaperone protein DnaJ; Provisional; Region: PRK14299 880071003581 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 880071003582 HSP70 interaction site [polypeptide binding]; other site 880071003583 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 880071003584 substrate binding site [polypeptide binding]; other site 880071003585 dimer interface [polypeptide binding]; other site 880071003586 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 880071003587 catalytic site [active] 880071003588 putative active site [active] 880071003589 putative substrate binding site [chemical binding]; other site 880071003590 HRDC domain; Region: HRDC; pfam00570 880071003591 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 880071003592 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 880071003593 NAD binding site [chemical binding]; other site 880071003594 substrate binding site [chemical binding]; other site 880071003595 homodimer interface [polypeptide binding]; other site 880071003596 active site 880071003597 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 880071003598 PGAP1-like protein; Region: PGAP1; pfam07819 880071003599 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 880071003600 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 880071003601 homodimer interface [polypeptide binding]; other site 880071003602 oligonucleotide binding site [chemical binding]; other site 880071003603 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 880071003604 binding surface 880071003605 Tetratricopeptide repeat; Region: TPR_16; pfam13432 880071003606 TPR motif; other site 880071003607 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 880071003608 IHF dimer interface [polypeptide binding]; other site 880071003609 IHF - DNA interface [nucleotide binding]; other site 880071003610 threonine synthase; Validated; Region: PRK09225 880071003611 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 880071003612 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 880071003613 catalytic residue [active] 880071003614 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_4; cd06241 880071003615 putative active site [active] 880071003616 Zn binding site [ion binding]; other site 880071003617 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 880071003618 nudix motif; other site 880071003619 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 880071003620 HD domain; Region: HD_4; pfam13328 880071003621 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 880071003622 synthetase active site [active] 880071003623 NTP binding site [chemical binding]; other site 880071003624 metal binding site [ion binding]; metal-binding site 880071003625 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 880071003626 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 880071003627 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 880071003628 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 880071003629 active site 880071003630 substrate binding site [chemical binding]; other site 880071003631 metal binding site [ion binding]; metal-binding site 880071003632 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 880071003633 active site 880071003634 metal binding site [ion binding]; metal-binding site 880071003635 homotetramer interface [polypeptide binding]; other site 880071003636 Protein of unknown function (Porph_ging); Region: Porph_ging; cl09903 880071003637 MoxR-like ATPases [General function prediction only]; Region: COG0714 880071003638 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 880071003639 Walker A motif; other site 880071003640 ATP binding site [chemical binding]; other site 880071003641 Walker B motif; other site 880071003642 arginine finger; other site 880071003643 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 880071003644 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 880071003645 putative active site [active] 880071003646 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 880071003647 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 880071003648 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 880071003649 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 880071003650 HlyD family secretion protein; Region: HlyD_3; pfam13437 880071003651 Domain of unknown function (DUF4289); Region: DUF4289; pfam14121 880071003652 Domain of unknown function DUF21; Region: DUF21; pfam01595 880071003653 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 880071003654 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 880071003655 Transporter associated domain; Region: CorC_HlyC; smart01091 880071003656 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 880071003657 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 880071003658 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 880071003659 putative substrate translocation pore; other site 880071003660 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 880071003661 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 880071003662 RNA ligase; Region: RNA_ligase; pfam09414 880071003663 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 880071003664 Zn2+ binding site [ion binding]; other site 880071003665 Mg2+ binding site [ion binding]; other site 880071003666 AAA domain; Region: AAA_33; pfam13671 880071003667 Type III pantothenate kinase; Region: Pan_kinase; cl17198 880071003668 elongation factor Ts; Provisional; Region: tsf; PRK09377 880071003669 UBA/TS-N domain; Region: UBA; pfam00627 880071003670 Elongation factor TS; Region: EF_TS; pfam00889 880071003671 Elongation factor TS; Region: EF_TS; pfam00889 880071003672 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 880071003673 rRNA interaction site [nucleotide binding]; other site 880071003674 S8 interaction site; other site 880071003675 putative laminin-1 binding site; other site 880071003676 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 880071003677 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 880071003678 23S rRNA interface [nucleotide binding]; other site 880071003679 L3 interface [polypeptide binding]; other site 880071003680 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 880071003681 Ferritin-like domain; Region: Ferritin; pfam00210 880071003682 ferroxidase diiron center [ion binding]; other site 880071003683 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 880071003684 diaminopimelate decarboxylase; Region: lysA; TIGR01048 880071003685 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 880071003686 active site 880071003687 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 880071003688 substrate binding site [chemical binding]; other site 880071003689 catalytic residues [active] 880071003690 dimer interface [polypeptide binding]; other site 880071003691 acyl-CoA esterase; Provisional; Region: PRK10673 880071003692 PGAP1-like protein; Region: PGAP1; pfam07819 880071003693 TPR repeat; Region: TPR_11; pfam13414 880071003694 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 880071003695 binding surface 880071003696 TPR motif; other site 880071003697 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880071003698 GAF domain; Region: GAF_3; pfam13492 880071003699 GAF domain; Region: GAF_2; pfam13185 880071003700 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880071003701 OsmC-like protein; Region: OsmC; pfam02566 880071003702 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 880071003703 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 880071003704 catalytic residue [active] 880071003705 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 880071003706 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 880071003707 active site 880071003708 motif I; other site 880071003709 motif II; other site 880071003710 YceI-like domain; Region: YceI; pfam04264 880071003711 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 880071003712 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 880071003713 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 880071003714 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 880071003715 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 880071003716 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 880071003717 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 880071003718 Family description; Region: VCBS; pfam13517 880071003719 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880071003720 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 880071003721 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 880071003722 active site 880071003723 catalytic site [active] 880071003724 substrate binding site [chemical binding]; other site 880071003725 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 880071003726 PHP domain; Region: PHP; pfam02811 880071003727 active site 880071003728 Hom_end-associated Hint; Region: Hom_end_hint; pfam05203 880071003729 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 880071003730 protein-splicing catalytic site; other site 880071003731 thioester formation/cholesterol transfer; other site 880071003732 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 880071003733 protein-splicing catalytic site; other site 880071003734 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 880071003735 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 880071003736 generic binding surface II; other site 880071003737 generic binding surface I; other site 880071003738 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 880071003739 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880071003740 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 880071003741 DNA binding residues [nucleotide binding] 880071003742 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 880071003743 catalytic core [active] 880071003744 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 880071003745 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 880071003746 VPS10 domain; Region: VPS10; smart00602 880071003747 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 880071003748 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 880071003749 active site 880071003750 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 880071003751 putative active site [active] 880071003752 dimerization interface [polypeptide binding]; other site 880071003753 putative tRNAtyr binding site [nucleotide binding]; other site 880071003754 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 880071003755 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 880071003756 dimerization interface [polypeptide binding]; other site 880071003757 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 880071003758 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 880071003759 active site 880071003760 phosphorylation site [posttranslational modification] 880071003761 intermolecular recognition site; other site 880071003762 dimerization interface [polypeptide binding]; other site 880071003763 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 880071003764 ATP binding site [chemical binding]; other site 880071003765 Walker B motif; other site 880071003766 arginine finger; other site 880071003767 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 880071003768 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 880071003769 Putative zinc ribbon domain; Region: DUF164; pfam02591 880071003770 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880071003771 short chain dehydrogenase; Provisional; Region: PRK06181 880071003772 NAD(P) binding site [chemical binding]; other site 880071003773 active site 880071003774 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 880071003775 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 880071003776 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 880071003777 polyphosphate kinase; Provisional; Region: PRK05443 880071003778 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 880071003779 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 880071003780 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 880071003781 putative domain interface [polypeptide binding]; other site 880071003782 putative active site [active] 880071003783 catalytic site [active] 880071003784 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 880071003785 putative domain interface [polypeptide binding]; other site 880071003786 putative active site [active] 880071003787 catalytic site [active] 880071003788 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 880071003789 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 880071003790 active site 880071003791 DDE superfamily endonuclease; Region: DDE_3; pfam13358 880071003792 Homeodomain-like domain; Region: HTH_23; pfam13384 880071003793 Winged helix-turn helix; Region: HTH_29; pfam13551 880071003794 Homeodomain-like domain; Region: HTH_32; pfam13565 880071003795 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 880071003796 endonuclease III; Region: ENDO3c; smart00478 880071003797 minor groove reading motif; other site 880071003798 helix-hairpin-helix signature motif; other site 880071003799 substrate binding pocket [chemical binding]; other site 880071003800 active site 880071003801 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 880071003802 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 880071003803 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 880071003804 NAD(P) binding site [chemical binding]; other site 880071003805 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 880071003806 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880071003807 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 880071003808 TPR repeat; Region: TPR_11; pfam13414 880071003809 binding surface 880071003810 TPR motif; other site 880071003811 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 880071003812 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 880071003813 putative active site [active] 880071003814 putative metal binding site [ion binding]; other site 880071003815 Protein of unknown function (DUF3098); Region: DUF3098; pfam11297 880071003816 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14185 880071003817 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 880071003818 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 880071003819 homodimer interface [polypeptide binding]; other site 880071003820 NADP binding site [chemical binding]; other site 880071003821 substrate binding site [chemical binding]; other site 880071003822 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; cl00462 880071003823 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 880071003824 dimer interface [polypeptide binding]; other site 880071003825 phosphorylation site [posttranslational modification] 880071003826 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 880071003827 ATP binding site [chemical binding]; other site 880071003828 Mg2+ binding site [ion binding]; other site 880071003829 G-X-G motif; other site 880071003830 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 880071003831 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 880071003832 active site 880071003833 phosphorylation site [posttranslational modification] 880071003834 intermolecular recognition site; other site 880071003835 dimerization interface [polypeptide binding]; other site 880071003836 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 880071003837 DNA binding site [nucleotide binding] 880071003838 GTPase Era; Reviewed; Region: era; PRK00089 880071003839 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 880071003840 G1 box; other site 880071003841 GTP/Mg2+ binding site [chemical binding]; other site 880071003842 Switch I region; other site 880071003843 G2 box; other site 880071003844 Switch II region; other site 880071003845 G3 box; other site 880071003846 G4 box; other site 880071003847 G5 box; other site 880071003848 KH domain; Region: KH_2; pfam07650 880071003849 TPR repeat; Region: TPR_11; pfam13414 880071003850 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 880071003851 binding surface 880071003852 TPR motif; other site 880071003853 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 880071003854 binding surface 880071003855 TPR motif; other site 880071003856 Protein of unknown function (DUF4199); Region: DUF4199; pfam13858 880071003857 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 880071003858 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 880071003859 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 880071003860 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 880071003861 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 880071003862 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 880071003863 putative active site [active] 880071003864 catalytic triad [active] 880071003865 putative dimer interface [polypeptide binding]; other site 880071003866 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 880071003867 UbiA prenyltransferase family; Region: UbiA; pfam01040 880071003868 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880071003869 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 880071003870 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 880071003871 active site 880071003872 dimer interface [polypeptide binding]; other site 880071003873 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 880071003874 Ligand Binding Site [chemical binding]; other site 880071003875 Molecular Tunnel; other site 880071003876 short chain dehydrogenase; Provisional; Region: PRK07677 880071003877 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 880071003878 NAD(P) binding site [chemical binding]; other site 880071003879 substrate binding site [chemical binding]; other site 880071003880 homotetramer interface [polypeptide binding]; other site 880071003881 active site 880071003882 homodimer interface [polypeptide binding]; other site 880071003883 Homeodomain-like domain; Region: HTH_23; pfam13384 880071003884 Winged helix-turn helix; Region: HTH_29; pfam13551 880071003885 Homeodomain-like domain; Region: HTH_32; pfam13565 880071003886 DDE superfamily endonuclease; Region: DDE_3; pfam13358 880071003887 Isochorismatase family; Region: Isochorismatase; pfam00857 880071003888 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 880071003889 catalytic triad [active] 880071003890 dimer interface [polypeptide binding]; other site 880071003891 conserved cis-peptide bond; other site 880071003892 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 880071003893 RNA/DNA hybrid binding site [nucleotide binding]; other site 880071003894 active site 880071003895 TPR repeat; Region: TPR_11; pfam13414 880071003896 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 880071003897 binding surface 880071003898 TPR motif; other site 880071003899 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 880071003900 putative catalytic site [active] 880071003901 putative phosphate binding site [ion binding]; other site 880071003902 putative metal binding site [ion binding]; other site 880071003903 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 880071003904 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 880071003905 active site 880071003906 catalytic site [active] 880071003907 substrate binding site [chemical binding]; other site 880071003908 Predicted transcriptional regulator [Transcription]; Region: COG2378 880071003909 HTH domain; Region: HTH_11; pfam08279 880071003910 WYL domain; Region: WYL; pfam13280 880071003911 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 880071003912 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 880071003913 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 880071003914 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 880071003915 non-specific DNA binding site [nucleotide binding]; other site 880071003916 salt bridge; other site 880071003917 sequence-specific DNA binding site [nucleotide binding]; other site 880071003918 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 880071003919 tandem repeat interface [polypeptide binding]; other site 880071003920 oligomer interface [polypeptide binding]; other site 880071003921 active site residues [active] 880071003922 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 880071003923 tandem repeat interface [polypeptide binding]; other site 880071003924 oligomer interface [polypeptide binding]; other site 880071003925 active site residues [active] 880071003926 stage V sporulation protein K; Region: spore_V_K; TIGR02881 880071003927 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 880071003928 Walker A motif; other site 880071003929 ATP binding site [chemical binding]; other site 880071003930 Walker B motif; other site 880071003931 arginine finger; other site 880071003932 stage V sporulation protein K; Region: spore_V_K; TIGR02881 880071003933 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 880071003934 Walker A motif; other site 880071003935 ATP binding site [chemical binding]; other site 880071003936 Walker B motif; other site 880071003937 arginine finger; other site 880071003938 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 880071003939 GTP cyclohydrolase I; Provisional; Region: PLN03044 880071003940 active site 880071003941 AZL_007920/MXAN_0976 family protein; Region: AZL_007920_fam; TIGR04052 880071003942 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880071003943 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 880071003944 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 880071003945 N-terminal plug; other site 880071003946 ligand-binding site [chemical binding]; other site 880071003947 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 880071003948 YcxB-like protein; Region: YcxB; pfam14317 880071003949 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 880071003950 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 880071003951 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 880071003952 Mg++ binding site [ion binding]; other site 880071003953 putative catalytic motif [active] 880071003954 substrate binding site [chemical binding]; other site 880071003955 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 880071003956 N-acetyl-D-glucosamine binding site [chemical binding]; other site 880071003957 catalytic residue [active] 880071003958 AZL_007920/MXAN_0976 family protein; Region: AZL_007920_fam; TIGR04052 880071003959 SnoaL-like domain; Region: SnoaL_2; pfam12680 880071003960 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 880071003961 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 880071003962 DNA sulfur modification protein DndD; Region: DNA_S_dndD; TIGR03185 880071003963 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880071003964 Walker A/P-loop; other site 880071003965 ATP binding site [chemical binding]; other site 880071003966 Haemagglutinin; Region: Hemagglutinin; pfam00509 880071003967 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3440 880071003968 HNH endonuclease; Region: HNH_2; pfam13391 880071003969 Fe-S metabolism associated domain; Region: SufE; cl00951 880071003970 isocitrate lyase; Provisional; Region: PRK15063 880071003971 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 880071003972 tetramer interface [polypeptide binding]; other site 880071003973 active site 880071003974 Mg2+/Mn2+ binding site [ion binding]; other site 880071003975 malate synthase A; Region: malate_syn_A; TIGR01344 880071003976 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 880071003977 active site 880071003978 putative cation:proton antiport protein; Provisional; Region: PRK10669 880071003979 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 880071003980 TrkA-N domain; Region: TrkA_N; pfam02254 880071003981 Protein of unknown function (DUF3124); Region: DUF3124; pfam11322 880071003982 dephospho-CoA kinase; Region: TIGR00152 880071003983 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 880071003984 CoA-binding site [chemical binding]; other site 880071003985 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 880071003986 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 880071003987 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 880071003988 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 880071003989 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 880071003990 poly(R)-hydroxyalkanoic acid synthase, class III, PhaC subunit; Region: PHA_synth_III_C; TIGR01836 880071003991 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 880071003992 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 880071003993 Poly(R)-hydroxyalkanoic acid synthase subunit (PHA_synth_III_E); Region: PHA_synth_III_E; cl09914 880071003994 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 880071003995 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 880071003996 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880071003997 short chain dehydrogenase; Provisional; Region: PRK08339 880071003998 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 880071003999 putative NAD(P) binding site [chemical binding]; other site 880071004000 putative active site [active] 880071004001 Protein of unknown function (DUF419); Region: DUF419; pfam04237 880071004002 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 880071004003 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 880071004004 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 880071004005 ABC-ATPase subunit interface; other site 880071004006 dimer interface [polypeptide binding]; other site 880071004007 putative PBP binding regions; other site 880071004008 Eco47II restriction endonuclease; Region: RE_Eco47II; pfam09553 880071004009 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 880071004010 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 880071004011 cofactor binding site; other site 880071004012 DNA binding site [nucleotide binding] 880071004013 substrate interaction site [chemical binding]; other site 880071004014 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 880071004015 Adenylation domain of proteins similar to ATP-dependent polynucleotide ligases; Region: Adenylation_DNA_ligase_like; cl12015 880071004016 active site 880071004017 MSEP-CTERM protein; Region: MSEP-CTERM; TIGR04286 880071004018 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 880071004019 TPR repeat; Region: TPR_11; pfam13414 880071004020 Preprotein translocase subunit; Region: YajC; pfam02699 880071004021 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 880071004022 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 880071004023 FAD binding site [chemical binding]; other site 880071004024 homotetramer interface [polypeptide binding]; other site 880071004025 substrate binding pocket [chemical binding]; other site 880071004026 catalytic base [active] 880071004027 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 880071004028 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880071004029 NAD(P) binding site [chemical binding]; other site 880071004030 active site 880071004031 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 880071004032 dimer interaction site [polypeptide binding]; other site 880071004033 substrate-binding tunnel; other site 880071004034 active site 880071004035 catalytic site [active] 880071004036 substrate binding site [chemical binding]; other site 880071004037 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 880071004038 heat shock protein 90; Provisional; Region: PRK05218 880071004039 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 880071004040 ATP binding site [chemical binding]; other site 880071004041 Mg2+ binding site [ion binding]; other site 880071004042 G-X-G motif; other site 880071004043 Domain of unknown function (DUF389); Region: DUF389; pfam04087 880071004044 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 880071004045 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 880071004046 Gram-negative bacterial tonB protein; Region: TonB; cl10048 880071004047 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 880071004048 Mechanosensitive ion channel; Region: MS_channel; pfam00924 880071004049 ribonuclease R; Region: RNase_R; TIGR02063 880071004050 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 880071004051 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 880071004052 RNB domain; Region: RNB; pfam00773 880071004053 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 880071004054 RNA binding site [nucleotide binding]; other site 880071004055 Domain of unknown function (DUF4365); Region: DUF4365; pfam14280 880071004056 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 880071004057 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 880071004058 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 880071004059 ATP binding site [chemical binding]; other site 880071004060 putative Mg++ binding site [ion binding]; other site 880071004061 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 880071004062 nucleotide binding region [chemical binding]; other site 880071004063 ATP-binding site [chemical binding]; other site 880071004064 TRCF domain; Region: TRCF; pfam03461 880071004065 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 880071004066 EamA-like transporter family; Region: EamA; pfam00892 880071004067 EamA-like transporter family; Region: EamA; cl17759 880071004068 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 880071004069 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880071004070 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 880071004071 DNA binding residues [nucleotide binding] 880071004072 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880071004073 Walker A/P-loop; other site 880071004074 ATP binding site [chemical binding]; other site 880071004075 ABC transporter; Region: ABC_tran; pfam00005 880071004076 Q-loop/lid; other site 880071004077 ABC transporter signature motif; other site 880071004078 Walker B; other site 880071004079 D-loop; other site 880071004080 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 880071004081 active site residue [active] 880071004082 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 880071004083 Cysteine-rich domain; Region: CCG; pfam02754 880071004084 Cysteine-rich domain; Region: CCG; pfam02754 880071004085 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 880071004086 4Fe-4S binding domain; Region: Fer4; cl02805 880071004087 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 880071004088 DDE superfamily endonuclease; Region: DDE_4; cl17710 880071004089 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 880071004090 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 880071004091 active site 880071004092 dimer interface [polypeptide binding]; other site 880071004093 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 880071004094 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 880071004095 active site 880071004096 FMN binding site [chemical binding]; other site 880071004097 substrate binding site [chemical binding]; other site 880071004098 3Fe-4S cluster binding site [ion binding]; other site 880071004099 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 880071004100 domain interface; other site 880071004101 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 880071004102 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 880071004103 Sulfatase; Region: Sulfatase; pfam00884 880071004104 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 880071004105 Active site serine [active] 880071004106 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 880071004107 Helix-turn-helix domain; Region: HTH_18; pfam12833 880071004108 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 880071004109 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 880071004110 TPR motif; other site 880071004111 binding surface 880071004112 TPR repeat; Region: TPR_11; pfam13414 880071004113 TPR repeat; Region: TPR_11; pfam13414 880071004114 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 880071004115 binding surface 880071004116 TPR motif; other site 880071004117 TPR repeat; Region: TPR_11; pfam13414 880071004118 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 880071004119 TPR repeat; Region: TPR_11; pfam13414 880071004120 binding surface 880071004121 TPR motif; other site 880071004122 TPR repeat; Region: TPR_11; pfam13414 880071004123 isoleucyl-tRNA synthetase; Region: ileS; TIGR00392 880071004124 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 880071004125 active site 880071004126 HIGH motif; other site 880071004127 nucleotide binding site [chemical binding]; other site 880071004128 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 880071004129 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 880071004130 active site 880071004131 KMSKS motif; other site 880071004132 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 880071004133 tRNA binding surface [nucleotide binding]; other site 880071004134 anticodon binding site; other site 880071004135 Predicted membrane protein [Function unknown]; Region: COG4270 880071004136 Transcriptional regulators [Transcription]; Region: MarR; COG1846 880071004137 MarR family; Region: MarR_2; cl17246 880071004138 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 880071004139 dimer interface [polypeptide binding]; other site 880071004140 FMN binding site [chemical binding]; other site 880071004141 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 880071004142 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 880071004143 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 880071004144 Coenzyme A binding pocket [chemical binding]; other site 880071004145 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 880071004146 DNA-binding site [nucleotide binding]; DNA binding site 880071004147 RNA-binding motif; other site 880071004148 gliding motility associated protien GldN; Region: GldN; TIGR03523 880071004149 gliding motility associated protien GldN; Region: GldN; TIGR03523 880071004150 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 880071004151 active site 880071004152 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880071004153 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; uncharacterized family 2; Region: EEP-2; cd09084 880071004154 putative catalytic site [active] 880071004155 putative metal binding site [ion binding]; other site 880071004156 putative phosphate binding site [ion binding]; other site 880071004157 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 880071004158 Transglycosylase; Region: Transgly; pfam00912 880071004159 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 880071004160 cytidylate kinase; Provisional; Region: cmk; PRK00023 880071004161 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 880071004162 CMP-binding site; other site 880071004163 The sites determining sugar specificity; other site 880071004164 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 880071004165 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880071004166 active site 880071004167 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 880071004168 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 880071004169 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 880071004170 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 880071004171 active site 880071004172 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 880071004173 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 880071004174 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 880071004175 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 880071004176 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 880071004177 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 880071004178 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 880071004179 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 880071004180 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 880071004181 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 880071004182 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 880071004183 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 880071004184 dimerization interface [polypeptide binding]; other site 880071004185 GAF domain; Region: GAF_2; pfam13185 880071004186 GAF domain; Region: GAF_3; pfam13492 880071004187 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880071004188 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 880071004189 dimer interface [polypeptide binding]; other site 880071004190 phosphorylation site [posttranslational modification] 880071004191 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 880071004192 ATP binding site [chemical binding]; other site 880071004193 Mg2+ binding site [ion binding]; other site 880071004194 G-X-G motif; other site 880071004195 Response regulator receiver domain; Region: Response_reg; pfam00072 880071004196 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 880071004197 active site 880071004198 phosphorylation site [posttranslational modification] 880071004199 intermolecular recognition site; other site 880071004200 dimerization interface [polypeptide binding]; other site 880071004201 Response regulator receiver domain; Region: Response_reg; pfam00072 880071004202 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 880071004203 active site 880071004204 phosphorylation site [posttranslational modification] 880071004205 intermolecular recognition site; other site 880071004206 Response regulator receiver domain; Region: Response_reg; pfam00072 880071004207 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 880071004208 active site 880071004209 phosphorylation site [posttranslational modification] 880071004210 intermolecular recognition site; other site 880071004211 dimerization interface [polypeptide binding]; other site 880071004212 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 880071004213 Surface antigen; Region: Bac_surface_Ag; pfam01103 880071004214 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 880071004215 S1 domain; Region: S1_2; pfam13509 880071004216 S1 domain; Region: S1_2; pfam13509 880071004217 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 880071004218 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 880071004219 homotrimer interaction site [polypeptide binding]; other site 880071004220 putative active site [active] 880071004221 acetyl-CoA C-acetyltransferase; Region: PLN02644 880071004222 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 880071004223 dimer interface [polypeptide binding]; other site 880071004224 active site 880071004225 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 880071004226 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 880071004227 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 880071004228 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 880071004229 PhoD-like phosphatase; Region: PhoD; pfam09423 880071004230 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 880071004231 putative active site [active] 880071004232 putative metal binding site [ion binding]; other site 880071004233 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 880071004234 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880071004235 von Willebrand factor; Region: vWF_A; pfam12450 880071004236 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 880071004237 VWA subgroup: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_subgroup; cd01465 880071004238 metal ion-dependent adhesion site (MIDAS); other site 880071004239 Domain of unknown function (DUF3520); Region: DUF3520; pfam12034 880071004240 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 880071004241 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 880071004242 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 880071004243 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 880071004244 active site 880071004245 oxyanion hole [active] 880071004246 catalytic triad [active] 880071004247 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 880071004248 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 880071004249 Protein of unknown function (DUF563); Region: DUF563; pfam04577 880071004250 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 880071004251 Domain of unknown function (DUF697); Region: DUF697; pfam05128 880071004252 Short C-terminal domain; Region: SHOCT; pfam09851 880071004253 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 880071004254 Radical SAM superfamily; Region: Radical_SAM; pfam04055 880071004255 FeS/SAM binding site; other site 880071004256 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 880071004257 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 880071004258 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 880071004259 fructose-bisphosphate aldolase; Provisional; Region: PRK09250 880071004260 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 880071004261 putative active site; other site 880071004262 catalytic residue [active] 880071004263 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 880071004264 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 880071004265 putative acyl-acceptor binding pocket; other site 880071004266 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 880071004267 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 880071004268 catalytic residue [active] 880071004269 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 880071004270 Homeodomain-like domain; Region: HTH_23; pfam13384 880071004271 Winged helix-turn helix; Region: HTH_29; pfam13551 880071004272 Winged helix-turn helix; Region: HTH_33; pfam13592 880071004273 DDE superfamily endonuclease; Region: DDE_3; pfam13358 880071004274 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 880071004275 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 880071004276 oligomer interface [polypeptide binding]; other site 880071004277 active site 880071004278 metal binding site [ion binding]; metal-binding site 880071004279 hypothetical protein; Reviewed; Region: PRK12497 880071004280 glutamate racemase; Provisional; Region: PRK00865 880071004281 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 880071004282 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 880071004283 active site 880071004284 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 880071004285 AAA domain; Region: AAA_26; pfam13500 880071004286 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 880071004287 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 880071004288 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880071004289 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 880071004290 ATP binding site [chemical binding]; other site 880071004291 Mg2+ binding site [ion binding]; other site 880071004292 G-X-G motif; other site 880071004293 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 880071004294 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 880071004295 active site 880071004296 phosphorylation site [posttranslational modification] 880071004297 intermolecular recognition site; other site 880071004298 dimerization interface [polypeptide binding]; other site 880071004299 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 880071004300 DNA binding site [nucleotide binding] 880071004301 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 880071004302 CoA binding domain; Region: CoA_binding_2; pfam13380 880071004303 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 880071004304 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 880071004305 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 880071004306 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 880071004307 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 880071004308 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 880071004309 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 880071004310 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 880071004311 ribosomal protein L33; Region: rpl33; CHL00104 880071004312 Domain of unknown function (DUF4295); Region: DUF4295; pfam14128 880071004313 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 880071004314 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 880071004315 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 880071004316 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 880071004317 dimerization interface [polypeptide binding]; other site 880071004318 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 880071004319 dimer interface [polypeptide binding]; other site 880071004320 phosphorylation site [posttranslational modification] 880071004321 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 880071004322 ATP binding site [chemical binding]; other site 880071004323 Mg2+ binding site [ion binding]; other site 880071004324 G-X-G motif; other site 880071004325 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 880071004326 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 880071004327 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880071004328 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 880071004329 PA_M28_2: Protease-associated (PA) domain, peptidase family M28, subfamily-2. A subfamily of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions; Region: PA_M28_2; cd04815 880071004330 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 880071004331 PA/protease or protease-like domain interface [polypeptide binding]; other site 880071004332 M28 Zn-Peptidase Plasma glutamate carboxypeptidase; Region: M28_Pgcp_like; cd03883 880071004333 Peptidase family M28; Region: Peptidase_M28; pfam04389 880071004334 metal binding site [ion binding]; metal-binding site 880071004335 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 880071004336 Ligand Binding Site [chemical binding]; other site 880071004337 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 880071004338 Ligand Binding Site [chemical binding]; other site 880071004339 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 880071004340 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 880071004341 dimer interface [polypeptide binding]; other site 880071004342 conserved gate region; other site 880071004343 putative PBP binding loops; other site 880071004344 ABC-ATPase subunit interface; other site 880071004345 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 880071004346 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 880071004347 Uncharacterized conserved protein [Function unknown]; Region: COG3349 880071004348 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 880071004349 Zinc dependent phospholipase C/S1-P1 nuclease; Region: ZnPC_S1P1; cd10981 880071004350 Zn binding site [ion binding]; other site 880071004351 dihydrodipicolinate reductase; Provisional; Region: PRK00048 880071004352 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 880071004353 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 880071004354 Signal peptidase I [Intracellular trafficking and secretion]; Region: LepB; COG0681 880071004355 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 880071004356 Catalytic site [active] 880071004357 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 880071004358 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 880071004359 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 880071004360 substrate binding site; other site 880071004361 tetramer interface; other site 880071004362 Domain of unknown function (DUF1707); Region: DUF1707; pfam08044 880071004363 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 880071004364 RmuC family; Region: RmuC; pfam02646 880071004365 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 880071004366 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 880071004367 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 880071004368 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 880071004369 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 880071004370 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880071004371 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880071004372 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880071004373 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880071004374 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 880071004375 binding surface 880071004376 TPR motif; other site 880071004377 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880071004378 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 880071004379 binding surface 880071004380 TPR motif; other site 880071004381 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880071004382 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880071004383 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 880071004384 binding surface 880071004385 TPR motif; other site 880071004386 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 880071004387 GAF domain; Region: GAF_3; pfam13492 880071004388 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880071004389 DNA photolyase; Region: DNA_photolyase; pfam00875 880071004390 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 880071004391 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 880071004392 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 880071004393 Cytochrome c; Region: Cytochrom_C; pfam00034 880071004394 M28 Zn-Peptidases; Region: M28_like_6; cd08656 880071004395 Peptidase family M28; Region: Peptidase_M28; pfam04389 880071004396 metal binding site [ion binding]; metal-binding site 880071004397 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 880071004398 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 880071004399 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 880071004400 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 880071004401 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 880071004402 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 880071004403 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 880071004404 putative acyl-acceptor binding pocket; other site 880071004405 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 880071004406 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 880071004407 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 880071004408 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880071004409 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880071004410 YcxB-like protein; Region: YcxB; pfam14317 880071004411 Acyltransferase family; Region: Acyl_transf_3; pfam01757 880071004412 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 880071004413 Cell division protein FtsA; Region: FtsA; smart00842 880071004414 Cell division protein FtsA; Region: FtsA; pfam14450 880071004415 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 880071004416 Amidohydrolase; Region: Amidohydro_4; pfam13147 880071004417 active site 880071004418 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 880071004419 Methyltransferase domain; Region: Methyltransf_24; pfam13578 880071004420 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 880071004421 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880071004422 Predicted acetyltransferase [General function prediction only]; Region: COG2388 880071004423 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 880071004424 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 880071004425 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 880071004426 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 880071004427 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880071004428 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 880071004429 HD domain; Region: HD_4; pfam13328 880071004430 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 880071004431 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 880071004432 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 880071004433 GAF domain; Region: GAF_3; pfam13492 880071004434 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 880071004435 PAS domain; Region: PAS_9; pfam13426 880071004436 putative active site [active] 880071004437 heme pocket [chemical binding]; other site 880071004438 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 880071004439 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 880071004440 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 880071004441 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 880071004442 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 880071004443 dimer interface [polypeptide binding]; other site 880071004444 motif 1; other site 880071004445 active site 880071004446 motif 2; other site 880071004447 motif 3; other site 880071004448 Domain of unknown function (DUF3127); Region: DUF3127; pfam11325 880071004449 Predicted flavoprotein [General function prediction only]; Region: COG0431 880071004450 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 880071004451 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 880071004452 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 880071004453 substrate binding site [chemical binding]; other site 880071004454 active site 880071004455 catalytic residues [active] 880071004456 heterodimer interface [polypeptide binding]; other site 880071004457 Domain of unknown function (DUF4328); Region: DUF4328; pfam14219 880071004458 Protein of unknown function (DUF983); Region: DUF983; cl02211 880071004459 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 880071004460 carboxyltransferase (CT) interaction site; other site 880071004461 biotinylation site [posttranslational modification]; other site 880071004462 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 880071004463 3-hydroxyanthranilate 3,4-dioxygenase; Provisional; Region: PRK13264 880071004464 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 880071004465 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 880071004466 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 880071004467 ABC transporter; Region: ABC_tran_2; pfam12848 880071004468 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 880071004469 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 880071004470 putative active site [active] 880071004471 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 880071004472 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 880071004473 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 880071004474 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 880071004475 ligand binding site [chemical binding]; other site 880071004476 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 880071004477 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 880071004478 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 880071004479 ATP-grasp domain; Region: ATP-grasp_4; cl17255 880071004480 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 880071004481 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 880071004482 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 880071004483 active site 880071004484 FMN binding site [chemical binding]; other site 880071004485 substrate binding site [chemical binding]; other site 880071004486 3Fe-4S cluster binding site [ion binding]; other site 880071004487 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 880071004488 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 880071004489 intersubunit interface [polypeptide binding]; other site 880071004490 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 880071004491 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 880071004492 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 880071004493 ligand binding site [chemical binding]; other site 880071004494 Bacitracin resistance protein BacA; Region: BacA; pfam02673 880071004495 Protein of unknown function (DUF2911); Region: DUF2911; pfam11138 880071004496 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 880071004497 TPR motif; other site 880071004498 binding surface 880071004499 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 880071004500 Peptidase family M23; Region: Peptidase_M23; pfam01551 880071004501 AAA domain; Region: AAA_21; pfam13304 880071004502 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 880071004503 ABC transporter signature motif; other site 880071004504 Walker B; other site 880071004505 D-loop; other site 880071004506 H-loop/switch region; other site 880071004507 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 880071004508 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 880071004509 putative dimer interface [polypeptide binding]; other site 880071004510 putative anticodon binding site; other site 880071004511 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 880071004512 homodimer interface [polypeptide binding]; other site 880071004513 motif 1; other site 880071004514 motif 2; other site 880071004515 active site 880071004516 motif 3; other site 880071004517 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 880071004518 Cation transport protein; Region: TrkH; pfam02386 880071004519 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_2; cd06239 880071004520 putative active site [active] 880071004521 Zn binding site [ion binding]; other site 880071004522 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 880071004523 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 880071004524 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 880071004525 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 880071004526 ligand binding site [chemical binding]; other site 880071004527 Pleckstrin homology-like domain; Region: PH-like; cl17171 880071004528 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 880071004529 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 880071004530 active site 880071004531 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 880071004532 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 880071004533 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA; cd03877 880071004534 Peptidase family M28; Region: Peptidase_M28; pfam04389 880071004535 metal binding site [ion binding]; metal-binding site 880071004536 PAS domain; Region: PAS_9; pfam13426 880071004537 PAS fold; Region: PAS_4; pfam08448 880071004538 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 880071004539 PAS domain; Region: PAS_9; pfam13426 880071004540 putative active site [active] 880071004541 heme pocket [chemical binding]; other site 880071004542 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 880071004543 GAF domain; Region: GAF; cl17456 880071004544 PAS domain; Region: PAS_9; pfam13426 880071004545 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 880071004546 PAS domain; Region: PAS_9; pfam13426 880071004547 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880071004548 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 880071004549 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 880071004550 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 880071004551 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 880071004552 HEPN domain; Region: HEPN; cl00824 880071004553 Ribosomal protein L34e; Region: Ribosomal_L34e; cl00955 880071004554 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 880071004555 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 880071004556 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 880071004557 Active_site [active] 880071004558 IPT/TIG domain; Region: TIG; pfam01833 880071004559 FOG: PKD repeat [General function prediction only]; Region: COG3291 880071004560 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 880071004561 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 880071004562 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880071004563 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 880071004564 Peptidase family M48; Region: Peptidase_M48; cl12018 880071004565 short chain dehydrogenase; Provisional; Region: PRK06924 880071004566 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880071004567 NAD(P) binding site [chemical binding]; other site 880071004568 active site 880071004569 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 880071004570 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 880071004571 catalytic motif [active] 880071004572 Zn binding site [ion binding]; other site 880071004573 RibD C-terminal domain; Region: RibD_C; pfam01872 880071004574 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 880071004575 trimer interface [polypeptide binding]; other site 880071004576 active site 880071004577 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 880071004578 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 880071004579 substrate binding site [chemical binding]; other site 880071004580 hexamer interface [polypeptide binding]; other site 880071004581 metal binding site [ion binding]; metal-binding site 880071004582 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 880071004583 HSP70 interaction site [polypeptide binding]; other site 880071004584 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 880071004585 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 880071004586 catalytic core [active] 880071004587 recombination protein RecR; Reviewed; Region: recR; PRK00076 880071004588 RecR protein; Region: RecR; pfam02132 880071004589 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 880071004590 putative active site [active] 880071004591 putative metal-binding site [ion binding]; other site 880071004592 tetramer interface [polypeptide binding]; other site 880071004593 lycopene cyclase; Region: lycopene_cycl; TIGR01789 880071004594 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 880071004595 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 880071004596 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 880071004597 minor groove reading motif; other site 880071004598 helix-hairpin-helix signature motif; other site 880071004599 substrate binding pocket [chemical binding]; other site 880071004600 active site 880071004601 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 880071004602 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 880071004603 DNA binding and oxoG recognition site [nucleotide binding] 880071004604 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 880071004605 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 880071004606 dimer interface [polypeptide binding]; other site 880071004607 ssDNA binding site [nucleotide binding]; other site 880071004608 tetramer (dimer of dimers) interface [polypeptide binding]; other site 880071004609 gliding motility-associated protein GldE; Region: GldE; TIGR03520 880071004610 Domain of unknown function DUF21; Region: DUF21; pfam01595 880071004611 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 880071004612 Transporter associated domain; Region: CorC_HlyC; smart01091 880071004613 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 880071004614 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880071004615 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 880071004616 DNA binding residues [nucleotide binding] 880071004617 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 880071004618 active site 880071004619 multimer interface [polypeptide binding]; other site 880071004620 Peptidase family M48; Region: Peptidase_M48; cl12018 880071004621 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880071004622 Enoyl-(Acyl carrier protein) reductase; Region: adh_short_C2; pfam13561 880071004623 NAD(P) binding site [chemical binding]; other site 880071004624 active site 880071004625 YhhN-like protein; Region: YhhN; pfam07947 880071004626 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 880071004627 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 880071004628 active site 880071004629 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 880071004630 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 880071004631 core dimer interface [polypeptide binding]; other site 880071004632 peripheral dimer interface [polypeptide binding]; other site 880071004633 L10 interface [polypeptide binding]; other site 880071004634 L11 interface [polypeptide binding]; other site 880071004635 putative EF-Tu interaction site [polypeptide binding]; other site 880071004636 putative EF-G interaction site [polypeptide binding]; other site 880071004637 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 880071004638 23S rRNA interface [nucleotide binding]; other site 880071004639 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 880071004640 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 880071004641 mRNA/rRNA interface [nucleotide binding]; other site 880071004642 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 880071004643 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 880071004644 23S rRNA interface [nucleotide binding]; other site 880071004645 L7/L12 interface [polypeptide binding]; other site 880071004646 putative thiostrepton binding site; other site 880071004647 L25 interface [polypeptide binding]; other site 880071004648 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 880071004649 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 880071004650 putative homodimer interface [polypeptide binding]; other site 880071004651 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 880071004652 heterodimer interface [polypeptide binding]; other site 880071004653 homodimer interface [polypeptide binding]; other site 880071004654 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 880071004655 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 880071004656 starch binding outer membrane protein SusD; Region: SusD; cl17845 880071004657 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880071004658 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 880071004659 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 880071004660 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 880071004661 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 880071004662 Phosphoglycerate kinase; Region: PGK; pfam00162 880071004663 substrate binding site [chemical binding]; other site 880071004664 hinge regions; other site 880071004665 ADP binding site [chemical binding]; other site 880071004666 catalytic site [active] 880071004667 Protein of unknown function (DUF962); Region: DUF962; cl01879 880071004668 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 880071004669 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 880071004670 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 880071004671 catalytic residue [active] 880071004672 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 880071004673 non-specific DNA binding site [nucleotide binding]; other site 880071004674 salt bridge; other site 880071004675 sequence-specific DNA binding site [nucleotide binding]; other site 880071004676 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 880071004677 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 880071004678 nucleotide binding site [chemical binding]; other site 880071004679 NEF interaction site [polypeptide binding]; other site 880071004680 SBD interface [polypeptide binding]; other site 880071004681 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 880071004682 Domain of unknown function (DUF4403); Region: DUF4403; pfam14356 880071004683 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 880071004684 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 880071004685 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 880071004686 putative L-serine binding site [chemical binding]; other site 880071004687 Immunoglobulin domain; Region: Ig_2; pfam13895 880071004688 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880071004689 Lipocalin-like domain; Region: Lipocalin_4; pfam13648 880071004690 Family description; Region: VCBS; pfam13517 880071004691 Family description; Region: VCBS; pfam13517 880071004692 Family description; Region: VCBS; pfam13517 880071004693 TIGR03032 family protein; Region: TIGR03032 880071004694 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 880071004695 Coenzyme A binding pocket [chemical binding]; other site 880071004696 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 880071004697 GTP-binding protein Der; Reviewed; Region: PRK00093 880071004698 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 880071004699 G1 box; other site 880071004700 GTP/Mg2+ binding site [chemical binding]; other site 880071004701 Switch I region; other site 880071004702 G2 box; other site 880071004703 Switch II region; other site 880071004704 G3 box; other site 880071004705 G4 box; other site 880071004706 G5 box; other site 880071004707 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 880071004708 G1 box; other site 880071004709 GTP/Mg2+ binding site [chemical binding]; other site 880071004710 Switch I region; other site 880071004711 G2 box; other site 880071004712 G3 box; other site 880071004713 Switch II region; other site 880071004714 G4 box; other site 880071004715 G5 box; other site 880071004716 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 880071004717 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 880071004718 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 880071004719 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 880071004720 DNA methylase; Region: N6_N4_Mtase; pfam01555 880071004721 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 880071004722 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 880071004723 Competence protein; Region: Competence; pfam03772 880071004724 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 880071004725 Ligand binding site; other site 880071004726 Putative Catalytic site; other site 880071004727 DXD motif; other site 880071004728 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; cl02041 880071004729 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 880071004730 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 880071004731 NAD binding site [chemical binding]; other site 880071004732 Protein of unknown function (DUF2723); Region: DUF2723; pfam11028 880071004733 Protein of unknown function DUF72; Region: DUF72; pfam01904 880071004734 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 880071004735 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 880071004736 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 880071004737 putative acyl-acceptor binding pocket; other site 880071004738 HlyD family secretion protein; Region: HlyD_2; pfam12700 880071004739 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 880071004740 carboxyltransferase (CT) interaction site; other site 880071004741 biotinylation site [posttranslational modification]; other site 880071004742 HlyD family secretion protein; Region: HlyD_3; pfam13437 880071004743 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 880071004744 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 880071004745 Uncharacterized conserved protein [Function unknown]; Region: COG2128 880071004746 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 880071004747 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 880071004748 ligand binding site [chemical binding]; other site 880071004749 flexible hinge region; other site 880071004750 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 880071004751 putative switch regulator; other site 880071004752 non-specific DNA interactions [nucleotide binding]; other site 880071004753 DNA binding site [nucleotide binding] 880071004754 sequence specific DNA binding site [nucleotide binding]; other site 880071004755 putative cAMP binding site [chemical binding]; other site 880071004756 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 880071004757 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 880071004758 Flavoprotein; Region: Flavoprotein; pfam02441 880071004759 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 880071004760 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 880071004761 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 880071004762 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 880071004763 Domain of unknown function (DUF4419); Region: DUF4419; pfam14388 880071004764 Domain of unknown function (DUF4419); Region: DUF4419; pfam14388 880071004765 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 880071004766 Fatty acid desaturase; Region: FA_desaturase; pfam00487 880071004767 putative di-iron ligands [ion binding]; other site 880071004768 Predicted transcriptional regulator [Transcription]; Region: COG2378 880071004769 WYL domain; Region: WYL; pfam13280 880071004770 Predicted nucleotidyltransferase; Region: Nuc-transf; cl01417 880071004771 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cd02619 880071004772 active site 880071004773 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 880071004774 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 880071004775 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 880071004776 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 880071004777 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 880071004778 RNA binding surface [nucleotide binding]; other site 880071004779 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 880071004780 active site 880071004781 PcfJ-like protein; Region: PcfJ; pfam14284 880071004782 exosortase K; Region: exosort_XrtK; TIGR04287 880071004783 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cl00250 880071004784 30S subunit binding site; other site 880071004785 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880071004786 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880071004787 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 880071004788 binding surface 880071004789 TPR motif; other site 880071004790 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880071004791 CHAT domain; Region: CHAT; pfam12770 880071004792 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 880071004793 Bacterial Ig-like domain; Region: Big_5; pfam13205 880071004794 Bacterial Ig-like domain; Region: Big_5; pfam13205 880071004795 Bacterial Ig-like domain; Region: Big_5; pfam13205 880071004796 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880071004797 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 880071004798 Two component regulator propeller; Region: Reg_prop; pfam07494 880071004799 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 880071004800 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 880071004801 GAF domain; Region: GAF_3; pfam13492 880071004802 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880071004803 NTR_like domain; a beta barrel with an oligosaccharide/oligonucleotide-binding fold found in netrins, complement proteins, tissue inhibitors of metalloproteases (TIMP), and procollagen C-proteinase enhancers (PCOLCE), amongst others. In netrins, the...; Region: NTR_like; cl02512 880071004804 Septum formation initiator; Region: DivIC; cl17659 880071004805 Protein of unknown function (DUF3137); Region: DUF3137; pfam11335 880071004806 Response regulator receiver domain; Region: Response_reg; pfam00072 880071004807 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 880071004808 active site 880071004809 phosphorylation site [posttranslational modification] 880071004810 intermolecular recognition site; other site 880071004811 dimerization interface [polypeptide binding]; other site 880071004812 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880071004813 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 880071004814 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 880071004815 N-acetyl-D-glucosamine binding site [chemical binding]; other site 880071004816 catalytic residue [active] 880071004817 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 880071004818 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 880071004819 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 880071004820 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 880071004821 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 880071004822 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 880071004823 ligand binding site [chemical binding]; other site 880071004824 C-N hydrolase family amidase; Provisional; Region: PRK10438 880071004825 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 880071004826 putative active site [active] 880071004827 catalytic triad [active] 880071004828 dimer interface [polypeptide binding]; other site 880071004829 multimer interface [polypeptide binding]; other site 880071004830 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 880071004831 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 880071004832 minor groove reading motif; other site 880071004833 helix-hairpin-helix signature motif; other site 880071004834 substrate binding pocket [chemical binding]; other site 880071004835 active site 880071004836 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 880071004837 oligomeric interface; other site 880071004838 putative active site [active] 880071004839 homodimer interface [polypeptide binding]; other site 880071004840 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 880071004841 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 880071004842 substrate binding site [chemical binding]; other site 880071004843 oxyanion hole (OAH) forming residues; other site 880071004844 trimer interface [polypeptide binding]; other site 880071004845 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 880071004846 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 880071004847 Cu(I) binding site [ion binding]; other site 880071004848 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 880071004849 YHYH protein; Region: YHYH; pfam14240 880071004850 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 880071004851 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880071004852 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 880071004853 DNA binding residues [nucleotide binding] 880071004854 Methyltransferase domain; Region: Methyltransf_23; pfam13489 880071004855 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 880071004856 S-adenosylmethionine binding site [chemical binding]; other site 880071004857 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 880071004858 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 880071004859 catalytic residue [active] 880071004860 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 880071004861 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 880071004862 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 880071004863 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 880071004864 protein binding site [polypeptide binding]; other site 880071004865 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 880071004866 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 880071004867 putative active site [active] 880071004868 Uncharacterized conserved protein [Function unknown]; Region: COG2353 880071004869 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 880071004870 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 880071004871 twin arginine translocase protein A; Provisional; Region: tatA; PRK00575 880071004872 Sec-independent protein secretion pathway components [Intracellular trafficking and secretion]; Region: TatA; COG1826 880071004873 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 880071004874 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 880071004875 substrate binding pocket [chemical binding]; other site 880071004876 chain length determination region; other site 880071004877 substrate-Mg2+ binding site; other site 880071004878 catalytic residues [active] 880071004879 aspartate-rich region 1; other site 880071004880 active site lid residues [active] 880071004881 aspartate-rich region 2; other site 880071004882 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 880071004883 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 880071004884 cofactor binding site; other site 880071004885 DNA binding site [nucleotide binding] 880071004886 substrate interaction site [chemical binding]; other site 880071004887 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 880071004888 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 880071004889 ATP binding site [chemical binding]; other site 880071004890 putative Mg++ binding site [ion binding]; other site 880071004891 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 880071004892 nucleotide binding region [chemical binding]; other site 880071004893 ATP-binding site [chemical binding]; other site 880071004894 Fatty acid desaturase; Region: FA_desaturase; pfam00487 880071004895 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 880071004896 putative di-iron ligands [ion binding]; other site 880071004897 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880071004898 Alpha-2-macroglobulin family; Region: A2M; pfam00207 880071004899 Maf-like protein; Region: Maf; pfam02545 880071004900 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 880071004901 active site 880071004902 dimer interface [polypeptide binding]; other site 880071004903 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 880071004904 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 880071004905 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 880071004906 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 880071004907 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 880071004908 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 880071004909 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 880071004910 ligand binding site [chemical binding]; other site 880071004911 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 880071004912 dimerization interface [polypeptide binding]; other site 880071004913 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 880071004914 GAF domain; Region: GAF_3; pfam13492 880071004915 PAS fold; Region: PAS_4; pfam08448 880071004916 von Willebrand factor type A domain; Region: VWA_2; pfam13519 880071004917 metal ion-dependent adhesion site (MIDAS); other site 880071004918 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 880071004919 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 880071004920 cofactor binding site; other site 880071004921 DNA binding site [nucleotide binding] 880071004922 substrate interaction site [chemical binding]; other site 880071004923 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 880071004924 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 880071004925 cofactor binding site; other site 880071004926 DNA binding site [nucleotide binding] 880071004927 substrate interaction site [chemical binding]; other site 880071004928 Fic family protein [Function unknown]; Region: COG3177 880071004929 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 880071004930 Fic/DOC family; Region: Fic; pfam02661 880071004931 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 880071004932 putative DNA binding site [nucleotide binding]; other site 880071004933 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 880071004934 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 880071004935 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 880071004936 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 880071004937 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 880071004938 DnaJ domain; Region: DnaJ; pfam00226 880071004939 HSP70 interaction site [polypeptide binding]; other site 880071004940 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 880071004941 dimer interface [polypeptide binding]; other site 880071004942 putative radical transfer pathway; other site 880071004943 diiron center [ion binding]; other site 880071004944 tyrosyl radical; other site 880071004945 ParA-like protein; Provisional; Region: PHA02518 880071004946 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 880071004947 P-loop; other site 880071004948 Magnesium ion binding site [ion binding]; other site 880071004949 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 880071004950 active site 880071004951 putative substrate binding region [chemical binding]; other site 880071004952 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 880071004953 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 880071004954 tRNA; other site 880071004955 putative tRNA binding site [nucleotide binding]; other site 880071004956 putative NADP binding site [chemical binding]; other site 880071004957 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 880071004958 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 880071004959 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 880071004960 substrate binding pocket [chemical binding]; other site 880071004961 active site 880071004962 iron coordination sites [ion binding]; other site 880071004963 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 880071004964 Chromate transporter; Region: Chromate_transp; pfam02417 880071004965 Chromate transporter; Region: Chromate_transp; pfam02417 880071004966 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase-like 1; Region: PLPDE_III_AR_like_1; cd06815 880071004967 dimer interface [polypeptide binding]; other site 880071004968 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 880071004969 active site 880071004970 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 880071004971 substrate binding site [chemical binding]; other site 880071004972 catalytic residue [active] 880071004973 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 880071004974 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 880071004975 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 880071004976 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 880071004977 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 880071004978 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 880071004979 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 880071004980 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 880071004981 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 880071004982 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 880071004983 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 880071004984 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 880071004985 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 880071004986 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 880071004987 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 880071004988 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 880071004989 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 880071004990 DNA binding site [nucleotide binding] 880071004991 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 880071004992 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 880071004993 binding surface 880071004994 TPR motif; other site 880071004995 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 880071004996 binding surface 880071004997 TPR motif; other site 880071004998 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 880071004999 binding surface 880071005000 TPR motif; other site 880071005001 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4339 880071005002 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 880071005003 nudix motif; other site 880071005004 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 880071005005 SmpB-tmRNA interface; other site 880071005006 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; pfam10013 880071005007 Dienelactone hydrolase family; Region: DLH; pfam01738 880071005008 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 880071005009 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 880071005010 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880071005011 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 880071005012 DNA binding residues [nucleotide binding] 880071005013 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 880071005014 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880071005015 AAA domain; Region: AAA_21; pfam13304 880071005016 Walker A/P-loop; other site 880071005017 ATP binding site [chemical binding]; other site 880071005018 AAA domain; Region: AAA_21; pfam13304 880071005019 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 880071005020 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 880071005021 active site residue [active] 880071005022 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 880071005023 active site residue [active] 880071005024 Predicted transporter component [General function prediction only]; Region: COG2391 880071005025 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 880071005026 Predicted transporter component [General function prediction only]; Region: COG2391 880071005027 Sulphur transport; Region: Sulf_transp; pfam04143 880071005028 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 880071005029 catalytic residues [active] 880071005030 dimer interface [polypeptide binding]; other site 880071005031 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 880071005032 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 880071005033 NHL repeat; Region: NHL; pfam01436 880071005034 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 880071005035 NADH(P)-binding; Region: NAD_binding_10; pfam13460 880071005036 NAD binding site [chemical binding]; other site 880071005037 active site 880071005038 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 880071005039 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cl00047 880071005040 ligand binding site [chemical binding]; other site 880071005041 flexible hinge region; other site 880071005042 2-dehydropantoate 2-reductase; Region: apbA_panE; TIGR00745 880071005043 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 880071005044 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 880071005045 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 880071005046 ApbE family; Region: ApbE; pfam02424 880071005047 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 880071005048 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 880071005049 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 880071005050 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 880071005051 hexamer interface [polypeptide binding]; other site 880071005052 ligand binding site [chemical binding]; other site 880071005053 putative active site [active] 880071005054 NAD(P) binding site [chemical binding]; other site 880071005055 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 880071005056 RNA ligase, Rnl2 family; Region: RNA_lig_RNL2; TIGR02307 880071005057 RNA ligase; Region: RNA_ligase; pfam09414 880071005058 TROVE domain; Region: TROVE; pfam05731 880071005059 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 880071005060 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 880071005061 Nucleoside recognition; Region: Gate; pfam07670 880071005062 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 880071005063 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 880071005064 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 880071005065 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 880071005066 catalytic residue [active] 880071005067 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 880071005068 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 880071005069 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 880071005070 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 880071005071 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 880071005072 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 880071005073 active site 880071005074 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 880071005075 active site 880071005076 Sporulation related domain; Region: SPOR; pfam05036 880071005077 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 880071005078 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 880071005079 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 880071005080 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 880071005081 PKD domain; Region: PKD; pfam00801 880071005082 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880071005083 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 880071005084 Peptidase family M23; Region: Peptidase_M23; pfam01551 880071005085 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 880071005086 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 880071005087 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880071005088 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 880071005089 FAD binding domain; Region: FAD_binding_4; pfam01565 880071005090 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 880071005091 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 880071005092 FOG: PKD repeat [General function prediction only]; Region: COG3291 880071005093 Repeats in polycystic kidney disease 1 (PKD1) and other proteins; Region: PKD; smart00089 880071005094 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880071005095 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 880071005096 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 880071005097 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 880071005098 active site 880071005099 ATP binding site [chemical binding]; other site 880071005100 substrate binding site [chemical binding]; other site 880071005101 activation loop (A-loop); other site 880071005102 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 880071005103 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 880071005104 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 880071005105 FtsX-like permease family; Region: FtsX; pfam02687 880071005106 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 880071005107 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 880071005108 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 880071005109 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 880071005110 GAF domain; Region: GAF_3; pfam13492 880071005111 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880071005112 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 880071005113 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 880071005114 ABC-ATPase subunit interface; other site 880071005115 dimer interface [polypeptide binding]; other site 880071005116 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 880071005117 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 880071005118 Protein of unknown function (DUF2805); Region: DUF2805; pfam10985 880071005119 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 880071005120 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 880071005121 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 880071005122 putative trimer interface [polypeptide binding]; other site 880071005123 putative CoA binding site [chemical binding]; other site 880071005124 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 880071005125 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 880071005126 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 880071005127 substrate binding pocket [chemical binding]; other site 880071005128 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 880071005129 B12 binding site [chemical binding]; other site 880071005130 cobalt ligand [ion binding]; other site 880071005131 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 880071005132 Winged helix-turn helix; Region: HTH_29; pfam13551 880071005133 Helix-turn-helix domain; Region: HTH_28; pfam13518 880071005134 Winged helix-turn helix; Region: HTH_33; pfam13592 880071005135 DDE superfamily endonuclease; Region: DDE_3; pfam13358 880071005136 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 880071005137 integron integrase; Region: integrase_gron; TIGR02249 880071005138 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 880071005139 Int/Topo IB signature motif; other site 880071005140 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 880071005141 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 880071005142 dimer interface [polypeptide binding]; other site 880071005143 ssDNA binding site [nucleotide binding]; other site 880071005144 tetramer (dimer of dimers) interface [polypeptide binding]; other site 880071005145 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 880071005146 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 880071005147 non-specific DNA binding site [nucleotide binding]; other site 880071005148 salt bridge; other site 880071005149 sequence-specific DNA binding site [nucleotide binding]; other site 880071005150 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 880071005151 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 880071005152 cofactor binding site; other site 880071005153 DNA binding site [nucleotide binding] 880071005154 substrate interaction site [chemical binding]; other site 880071005155 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 880071005156 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 880071005157 HNH endonuclease; Region: HNH_2; pfam13391 880071005158 Protein of unknown function (DUF4238); Region: DUF4238; pfam14022 880071005159 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 880071005160 tol-pal system protein YbgF; Provisional; Region: PRK10803 880071005161 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 880071005162 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 880071005163 TPR motif; other site 880071005164 TPR repeat; Region: TPR_11; pfam13414 880071005165 binding surface 880071005166 TIR domain; Region: TIR_2; pfam13676 880071005167 Caspase domain; Region: Peptidase_C14; pfam00656 880071005168 Domain of unknown function (DUF1963); Region: DUF1963; pfam09234 880071005169 FOG: WD40 repeat [General function prediction only]; Region: COG2319 880071005170 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 880071005171 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 880071005172 structural tetrad; other site 880071005173 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 880071005174 TPR motif; other site 880071005175 TPR repeat; Region: TPR_11; pfam13414 880071005176 binding surface 880071005177 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; cl17304 880071005178 Catalytic domain of Protein Kinases; Region: PKc; cd00180 880071005179 active site 880071005180 ATP binding site [chemical binding]; other site 880071005181 substrate binding site [chemical binding]; other site 880071005182 activation loop (A-loop); other site 880071005183 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 880071005184 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 880071005185 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 880071005186 Transposase [DNA replication, recombination, and repair]; Region: COG5421 880071005187 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 880071005188 glutaminase; Provisional; Region: PRK00971 880071005189 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 880071005190 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 880071005191 active site 880071005192 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 880071005193 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 880071005194 catalytic loop [active] 880071005195 iron binding site [ion binding]; other site 880071005196 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 880071005197 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 880071005198 Walker A motif; other site 880071005199 Hint (Hedgehog/Intein) domain N-terminal region; Region: HintN; smart00306 880071005200 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 880071005201 ATP binding site [chemical binding]; other site 880071005202 Walker B motif; other site 880071005203 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 880071005204 protein-splicing catalytic site; other site 880071005205 thioester formation/cholesterol transfer; other site 880071005206 Intein/homing endonuclease [DNA replication, recombination, and repair]; Region: COG1372 880071005207 Hint (Hedgehog/Intein) domain C-terminal region; Region: HintC; smart00305 880071005208 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 880071005209 This family is most closely related to the GT1 family of glycosyltransferases. ORF704 in E. coli has been shown to be involved in the biosynthesis of O-specific mannose homopolysaccharides; Region: GT1_ecORF704_like; cd03822 880071005210 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 880071005211 6-phosphofructokinase; Provisional; Region: PRK03202 880071005212 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 880071005213 active site 880071005214 ADP/pyrophosphate binding site [chemical binding]; other site 880071005215 dimerization interface [polypeptide binding]; other site 880071005216 allosteric effector site; other site 880071005217 fructose-1,6-bisphosphate binding site; other site 880071005218 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 880071005219 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 880071005220 active site 880071005221 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 880071005222 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 880071005223 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 880071005224 RuvA N terminal domain; Region: RuvA_N; pfam01330 880071005225 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 880071005226 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 880071005227 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 880071005228 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 880071005229 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 880071005230 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 880071005231 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 880071005232 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 880071005233 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 880071005234 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 880071005235 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 880071005236 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 880071005237 G8 domain; Region: G8; pfam10162 880071005238 HAMP domain; Region: HAMP; pfam00672 880071005239 dimerization interface [polypeptide binding]; other site 880071005240 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880071005241 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880071005242 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 880071005243 dimer interface [polypeptide binding]; other site 880071005244 phosphorylation site [posttranslational modification] 880071005245 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 880071005246 ATP binding site [chemical binding]; other site 880071005247 Mg2+ binding site [ion binding]; other site 880071005248 G-X-G motif; other site 880071005249 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 880071005250 FAD binding domain; Region: FAD_binding_4; pfam01565 880071005251 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 880071005252 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 880071005253 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 880071005254 binding surface 880071005255 TPR motif; other site 880071005256 TPR repeat; Region: TPR_11; pfam13414 880071005257 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 880071005258 binding surface 880071005259 TPR motif; other site 880071005260 DNA gyrase subunit A; Validated; Region: PRK05560 880071005261 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 880071005262 CAP-like domain; other site 880071005263 active site 880071005264 primary dimer interface [polypeptide binding]; other site 880071005265 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 880071005266 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 880071005267 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 880071005268 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 880071005269 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 880071005270 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 880071005271 active site 880071005272 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 880071005273 Domain of unknown function (DUF4271); Region: DUF4271; pfam14093 880071005274 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 880071005275 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 880071005276 catalytic residue [active] 880071005277 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 880071005278 hypothetical protein; Provisional; Region: PRK07236 880071005279 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 880071005280 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 880071005281 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 880071005282 ATP binding site [chemical binding]; other site 880071005283 YARHG domain; Region: YARHG; pfam13308 880071005284 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 880071005285 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 880071005286 active site 880071005287 Phosphoribosylaminoimidazole (AIR) synthetase [Nucleotide transport and metabolism]; Region: PurM; COG0150 880071005288 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 880071005289 dimerization interface [polypeptide binding]; other site 880071005290 ATP binding site [chemical binding]; other site 880071005291 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 880071005292 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 880071005293 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 880071005294 active site 880071005295 phosphorylation site [posttranslational modification] 880071005296 intermolecular recognition site; other site 880071005297 dimerization interface [polypeptide binding]; other site 880071005298 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880071005299 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 880071005300 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 880071005301 catalytic residues [active] 880071005302 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 880071005303 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 880071005304 active site 880071005305 metal binding site [ion binding]; metal-binding site 880071005306 adenylate kinase; Reviewed; Region: adk; PRK00279 880071005307 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 880071005308 AMP-binding site [chemical binding]; other site 880071005309 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 880071005310 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 880071005311 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 880071005312 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 880071005313 binding surface 880071005314 TPR repeat; Region: TPR_11; pfam13414 880071005315 TPR motif; other site 880071005316 Tetratricopeptide repeat; Region: TPR_16; pfam13432 880071005317 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 880071005318 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 880071005319 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 880071005320 FMN-binding domain; Region: FMN_bind; cl01081 880071005321 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 880071005322 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 880071005323 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 880071005324 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 880071005325 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 880071005326 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 880071005327 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 880071005328 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 880071005329 GAF domain; Region: GAF_2; pfam13185 880071005330 GAF domain; Region: GAF_3; pfam13492 880071005331 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880071005332 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880071005333 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 880071005334 Walker A/P-loop; other site 880071005335 ATP binding site [chemical binding]; other site 880071005336 Q-loop/lid; other site 880071005337 ABC transporter signature motif; other site 880071005338 Walker B; other site 880071005339 D-loop; other site 880071005340 H-loop/switch region; other site 880071005341 Domain of unknown function (DUF4290); Region: DUF4290; pfam14123 880071005342 Protein of unknown function (DUF3276); Region: DUF3276; pfam11680 880071005343 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 880071005344 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 880071005345 HIGH motif; other site 880071005346 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 880071005347 active site 880071005348 KMSKS motif; other site 880071005349 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880071005350 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 880071005351 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 880071005352 active site 880071005353 phosphorylation site [posttranslational modification] 880071005354 intermolecular recognition site; other site 880071005355 dimerization interface [polypeptide binding]; other site 880071005356 LytTr DNA-binding domain; Region: LytTR; smart00850 880071005357 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880071005358 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 880071005359 binding surface 880071005360 TPR motif; other site 880071005361 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880071005362 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 880071005363 binding surface 880071005364 TPR motif; other site 880071005365 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880071005366 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880071005367 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 880071005368 binding surface 880071005369 TPR motif; other site 880071005370 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880071005371 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 880071005372 ATP binding site [chemical binding]; other site 880071005373 Mg2+ binding site [ion binding]; other site 880071005374 G-X-G motif; other site 880071005375 Uncharacterized conserved protein [Function unknown]; Region: COG2128 880071005376 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 880071005377 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 880071005378 Helix-turn-helix domain; Region: HTH_18; pfam12833 880071005379 Protein of unknown function (DUF3467); Region: DUF3467; pfam11950 880071005380 TQO small subunit DoxD; Region: DoxD; pfam04173 880071005381 TQO small subunit DoxA; Region: DoxA; pfam07680 880071005382 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 880071005383 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 880071005384 PhnA protein; Region: PhnA; pfam03831 880071005385 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 880071005386 oligomeric interface; other site 880071005387 putative active site [active] 880071005388 homodimer interface [polypeptide binding]; other site 880071005389 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880071005390 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 880071005391 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 880071005392 N-terminal plug; other site 880071005393 ligand-binding site [chemical binding]; other site 880071005394 amino acid transporter; Region: 2A0306; TIGR00909 880071005395 Peptidase family M49; Region: Peptidase_M49; pfam03571 880071005396 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 880071005397 active site 880071005398 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880071005399 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 880071005400 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 880071005401 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880071005402 Walker A/P-loop; other site 880071005403 ATP binding site [chemical binding]; other site 880071005404 Q-loop/lid; other site 880071005405 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880071005406 ABC transporter signature motif; other site 880071005407 Walker B; other site 880071005408 D-loop; other site 880071005409 H-loop/switch region; other site 880071005410 Thiol-disulfide isomerase and thioredoxins [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: TrxA; COG0526 880071005411 Outer membrane protein Omp28; Region: Omp28; pfam11551 880071005412 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 880071005413 30S subunit binding site; other site 880071005414 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 880071005415 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 880071005416 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 880071005417 PAS domain; Region: PAS; smart00091 880071005418 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 880071005419 dimer interface [polypeptide binding]; other site 880071005420 phosphorylation site [posttranslational modification] 880071005421 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 880071005422 ATP binding site [chemical binding]; other site 880071005423 Mg2+ binding site [ion binding]; other site 880071005424 G-X-G motif; other site 880071005425 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 880071005426 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 880071005427 dimerization interface [polypeptide binding]; other site 880071005428 GAF domain; Region: GAF_3; pfam13492 880071005429 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 880071005430 dimer interface [polypeptide binding]; other site 880071005431 phosphorylation site [posttranslational modification] 880071005432 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 880071005433 ATP binding site [chemical binding]; other site 880071005434 Mg2+ binding site [ion binding]; other site 880071005435 G-X-G motif; other site 880071005436 Response regulator receiver domain; Region: Response_reg; pfam00072 880071005437 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 880071005438 active site 880071005439 phosphorylation site [posttranslational modification] 880071005440 intermolecular recognition site; other site 880071005441 dimerization interface [polypeptide binding]; other site 880071005442 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 880071005443 Response regulator receiver domain; Region: Response_reg; pfam00072 880071005444 active site 880071005445 phosphorylation site [posttranslational modification] 880071005446 intermolecular recognition site; other site 880071005447 Response regulator receiver domain; Region: Response_reg; pfam00072 880071005448 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 880071005449 active site 880071005450 phosphorylation site [posttranslational modification] 880071005451 intermolecular recognition site; other site 880071005452 dimerization interface [polypeptide binding]; other site 880071005453 Uncharacterized conserved protein [Function unknown]; Region: COG1624 880071005454 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 880071005455 Na(+)/iodide (NIS) and Na(+)/multivitamin (SMVT) cotransporters, and related proteins; solute binding domain; Region: SLC5sbd_NIS-like; cd10326 880071005456 Na binding site [ion binding]; other site 880071005457 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 880071005458 non-specific DNA binding site [nucleotide binding]; other site 880071005459 salt bridge; other site 880071005460 sequence-specific DNA binding site [nucleotide binding]; other site 880071005461 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; pfam09907 880071005462 aconitate hydratase; Validated; Region: PRK07229 880071005463 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 880071005464 substrate binding site [chemical binding]; other site 880071005465 ligand binding site [chemical binding]; other site 880071005466 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 880071005467 substrate binding site [chemical binding]; other site 880071005468 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 880071005469 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 880071005470 catalytic residues [active] 880071005471 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; cl01912 880071005472 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 880071005473 non-specific DNA binding site [nucleotide binding]; other site 880071005474 salt bridge; other site 880071005475 sequence-specific DNA binding site [nucleotide binding]; other site 880071005476 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 880071005477 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 880071005478 dimer interface [polypeptide binding]; other site 880071005479 active site 880071005480 heme binding site [chemical binding]; other site 880071005481 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 880071005482 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 880071005483 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 880071005484 AsnC family; Region: AsnC_trans_reg; pfam01037 880071005485 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 880071005486 Leucine rich repeat; Region: LRR_8; pfam13855 880071005487 Leucine rich repeat; Region: LRR_8; pfam13855 880071005488 Leucine rich repeat; Region: LRR_8; pfam13855 880071005489 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 880071005490 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 880071005491 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 880071005492 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 880071005493 Cytochrome c; Region: Cytochrom_C; pfam00034 880071005494 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 880071005495 heme-binding residues [chemical binding]; other site 880071005496 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 880071005497 molybdopterin cofactor binding site; other site 880071005498 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 880071005499 4Fe-4S binding domain; Region: Fer4; cl02805 880071005500 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 880071005501 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 880071005502 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 880071005503 Protein of unknown function (DUF3341); Region: DUF3341; pfam11821 880071005504 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 880071005505 Cytochrome c; Region: Cytochrom_C; pfam00034 880071005506 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 880071005507 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 880071005508 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 880071005509 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 880071005510 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 880071005511 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 880071005512 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 880071005513 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880071005514 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 880071005515 DNA binding residues [nucleotide binding] 880071005516 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 880071005517 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 880071005518 putative active site [active] 880071005519 putative catalytic site [active] 880071005520 putative Mg binding site IVb [ion binding]; other site 880071005521 putative phosphate binding site [ion binding]; other site 880071005522 putative DNA binding site [nucleotide binding]; other site 880071005523 putative Mg binding site IVa [ion binding]; other site 880071005524 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 880071005525 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 880071005526 DNA binding residues [nucleotide binding] 880071005527 B12 binding domain; Region: B12-binding_2; pfam02607 880071005528 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 880071005529 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 880071005530 putative active site [active] 880071005531 Zn binding site [ion binding]; other site 880071005532 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 880071005533 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 880071005534 PYR/PP interface [polypeptide binding]; other site 880071005535 dimer interface [polypeptide binding]; other site 880071005536 TPP binding site [chemical binding]; other site 880071005537 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 880071005538 Uncharacterized protein family (UPF0158); Region: UPF0158; pfam03682 880071005539 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 880071005540 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 880071005541 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 880071005542 ligand binding site [chemical binding]; other site 880071005543 META domain; Region: META; pfam03724 880071005544 putative voltage-gated ClC-type chloride channel ClcB; Provisional; Region: PRK01862 880071005545 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 880071005546 Cl- selectivity filter; other site 880071005547 Cl- binding residues [ion binding]; other site 880071005548 pore gating glutamate residue; other site 880071005549 dimer interface [polypeptide binding]; other site 880071005550 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc2; cd04613 880071005551 Protein of unknown function DUF262; Region: DUF262; pfam03235 880071005552 NRDE protein; Region: NRDE; cl01315 880071005553 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 880071005554 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 880071005555 DNA polymerase III subunit delta'; Validated; Region: PRK08485 880071005556 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 880071005557 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880071005558 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 880071005559 DNA binding residues [nucleotide binding] 880071005560 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 880071005561 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 880071005562 active site 880071005563 catalytic residues [active] 880071005564 metal binding site [ion binding]; metal-binding site 880071005565 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 880071005566 CoA binding domain; Region: CoA_binding; smart00881 880071005567 CoA-ligase; Region: Ligase_CoA; pfam00549 880071005568 hypothetical protein; Provisional; Region: yieM; PRK10997 880071005569 VWA YIEM 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_YIEM_type; cd01462 880071005570 metal ion-dependent adhesion site (MIDAS); other site 880071005571 gliding motility-associated lipoprotein GldD; Region: GldD_lipo; TIGR03512 880071005572 homogentisate 1,2-dioxygenase; Region: HgmA; cl17306 880071005573 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 880071005574 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 880071005575 dimer interface [polypeptide binding]; other site 880071005576 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 880071005577 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 880071005578 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880071005579 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 880071005580 dimer interface [polypeptide binding]; other site 880071005581 phosphorylation site [posttranslational modification] 880071005582 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 880071005583 ATP binding site [chemical binding]; other site 880071005584 Mg2+ binding site [ion binding]; other site 880071005585 G-X-G motif; other site 880071005586 Methyltransferase domain; Region: Methyltransf_31; pfam13847 880071005587 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 880071005588 S-adenosylmethionine binding site [chemical binding]; other site 880071005589 FOG: WD40 repeat [General function prediction only]; Region: COG2319 880071005590 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 880071005591 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 880071005592 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 880071005593 TPR repeat; Region: TPR_11; pfam13414 880071005594 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 880071005595 TPR motif; other site 880071005596 binding surface 880071005597 TPR repeat; Region: TPR_11; pfam13414 880071005598 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 880071005599 binding surface 880071005600 TPR motif; other site 880071005601 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 880071005602 putative active site [active] 880071005603 putative catalytic site [active] 880071005604 putative DNA binding site [nucleotide binding]; other site 880071005605 putative phosphate binding site [ion binding]; other site 880071005606 metal binding site A [ion binding]; metal-binding site 880071005607 putative AP binding site [nucleotide binding]; other site 880071005608 putative metal binding site B [ion binding]; other site 880071005609 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 880071005610 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 880071005611 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 880071005612 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 880071005613 GldH lipoprotein; Region: GldH_lipo; pfam14109 880071005614 CTP synthetase; Validated; Region: pyrG; PRK05380 880071005615 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 880071005616 Catalytic site [active] 880071005617 active site 880071005618 UTP binding site [chemical binding]; other site 880071005619 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 880071005620 active site 880071005621 putative oxyanion hole; other site 880071005622 catalytic triad [active] 880071005623 membrane protein insertase; Provisional; Region: PRK01318 880071005624 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 880071005625 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 880071005626 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 880071005627 Sporulation related domain; Region: SPOR; cl10051 880071005628 integral membrane protein; Region: integ_memb_HG; TIGR03954 880071005629 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 880071005630 23S rRNA interface [nucleotide binding]; other site 880071005631 5S rRNA interface [nucleotide binding]; other site 880071005632 putative antibiotic binding site [chemical binding]; other site 880071005633 L25 interface [polypeptide binding]; other site 880071005634 L27 interface [polypeptide binding]; other site 880071005635 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 880071005636 putative translocon interaction site; other site 880071005637 23S rRNA interface [nucleotide binding]; other site 880071005638 signal recognition particle (SRP54) interaction site; other site 880071005639 L23 interface [polypeptide binding]; other site 880071005640 trigger factor interaction site; other site 880071005641 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 880071005642 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 880071005643 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 880071005644 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 880071005645 RNA binding site [nucleotide binding]; other site 880071005646 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 880071005647 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 880071005648 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 880071005649 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 880071005650 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 880071005651 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 880071005652 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 880071005653 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 880071005654 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 880071005655 5S rRNA interface [nucleotide binding]; other site 880071005656 23S rRNA interface [nucleotide binding]; other site 880071005657 L5 interface [polypeptide binding]; other site 880071005658 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 880071005659 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 880071005660 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 880071005661 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 880071005662 23S rRNA binding site [nucleotide binding]; other site 880071005663 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 880071005664 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 880071005665 SecY translocase; Region: SecY; pfam00344 880071005666 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 880071005667 active site 880071005668 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 880071005669 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 880071005670 S-adenosylmethionine binding site [chemical binding]; other site 880071005671 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 880071005672 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 880071005673 ligand binding site [chemical binding]; other site 880071005674 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 880071005675 active site 880071005676 catalytic residues [active] 880071005677 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 880071005678 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 880071005679 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880071005680 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 880071005681 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 880071005682 NAD(P) binding site [chemical binding]; other site 880071005683 Uncharacterized protein related to the periplasmic component of the Tol biopolymer transport system [Function unknown]; Region: COG4946 880071005684 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 880071005685 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 880071005686 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 880071005687 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 880071005688 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 880071005689 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 880071005690 protein binding site [polypeptide binding]; other site 880071005691 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 880071005692 Domain interface; other site 880071005693 Peptide binding site; other site 880071005694 Active site tetrad [active] 880071005695 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 880071005696 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 880071005697 von Willebrand factor; Region: vWF_A; pfam12450 880071005698 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 880071005699 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 880071005700 metal ion-dependent adhesion site (MIDAS); other site 880071005701 Domain of unknown function (DUF3520); Region: DUF3520; pfam12034 880071005702 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 880071005703 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 880071005704 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 880071005705 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 880071005706 gliding motility-associated protein GldM; Region: GldM_gliding; TIGR03517 880071005707 GldM N-terminal domain; Region: GldM_N; pfam12081 880071005708 GldM C-terminal domain; Region: GldM_C; pfam12080 880071005709 gliding motility-associated protein GldL; Region: GldL_gliding; TIGR03513 880071005710 gliding motility-associated lipoprotein GldK; Region: GldK_short; TIGR03529 880071005711 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 880071005712 Bacteroidetes-specific putative membrane protein; Region: Bac_Flav_fam_1; TIGR03519 880071005713 PspC domain; Region: PspC; pfam04024 880071005714 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 880071005715 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 880071005716 GAF domain; Region: GAF_3; pfam13492 880071005717 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880071005718 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 880071005719 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 880071005720 putative ADP-ribose binding site [chemical binding]; other site 880071005721 putative active site [active] 880071005722 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 880071005723 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 880071005724 FeS/SAM binding site; other site 880071005725 Protein of unknown function (DUF1498); Region: DUF1498; cl17840 880071005726 YceI-like domain; Region: YceI; smart00867 880071005727 DinB superfamily; Region: DinB_2; pfam12867 880071005728 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 880071005729 fumarylacetoacetase; Region: PLN02856 880071005730 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 880071005731 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 880071005732 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 880071005733 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 880071005734 RNase E interface [polypeptide binding]; other site 880071005735 trimer interface [polypeptide binding]; other site 880071005736 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 880071005737 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 880071005738 RNase E interface [polypeptide binding]; other site 880071005739 trimer interface [polypeptide binding]; other site 880071005740 active site 880071005741 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 880071005742 putative nucleic acid binding region [nucleotide binding]; other site 880071005743 G-X-X-G motif; other site 880071005744 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 880071005745 RNA binding site [nucleotide binding]; other site 880071005746 domain interface; other site 880071005747 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 880071005748 16S/18S rRNA binding site [nucleotide binding]; other site 880071005749 S13e-L30e interaction site [polypeptide binding]; other site 880071005750 25S rRNA binding site [nucleotide binding]; other site 880071005751 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 880071005752 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 880071005753 NAD(P) binding site [chemical binding]; other site 880071005754 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 880071005755 yiaA/B two helix domain; Region: YiaAB; cl01759 880071005756 Uncharacterized conserved protein [Function unknown]; Region: COG1315 880071005757 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 880071005758 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 880071005759 active site 880071005760 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 880071005761 putative active site [active] 880071005762 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 880071005763 MutS domain I; Region: MutS_I; pfam01624 880071005764 MutS domain II; Region: MutS_II; pfam05188 880071005765 MutS domain III; Region: MutS_III; pfam05192 880071005766 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 880071005767 Walker A/P-loop; other site 880071005768 ATP binding site [chemical binding]; other site 880071005769 Q-loop/lid; other site 880071005770 ABC transporter signature motif; other site 880071005771 Walker B; other site 880071005772 D-loop; other site 880071005773 H-loop/switch region; other site 880071005774 Bacterial Ig-like domain; Region: Big_5; pfam13205 880071005775 Bacterial Ig-like domain; Region: Big_5; pfam13205 880071005776 Bacterial Ig-like domain; Region: Big_5; pfam13205 880071005777 Lamin Tail Domain; Region: LTD; pfam00932 880071005778 Lamin Tail Domain; Region: LTD; pfam00932 880071005779 Lamin Tail Domain; Region: LTD; pfam00932 880071005780 C-terminal domain of CHU protein family; Region: CHU_C; cl17875 880071005781 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880071005782 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880071005783 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880071005784 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880071005785 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880071005786 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 880071005787 HYR domain; Region: HYR; pfam02494 880071005788 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880071005789 Haemolysin-III related; Region: HlyIII; cl03831 880071005790 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 880071005791 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 880071005792 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880071005793 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 880071005794 DNA binding residues [nucleotide binding] 880071005795 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 880071005796 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 880071005797 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 880071005798 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 880071005799 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 880071005800 Walker A/P-loop; other site 880071005801 ATP binding site [chemical binding]; other site 880071005802 Q-loop/lid; other site 880071005803 ABC transporter signature motif; other site 880071005804 Walker B; other site 880071005805 D-loop; other site 880071005806 H-loop/switch region; other site 880071005807 PemK-like protein; Region: PemK; pfam02452 880071005808 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 880071005809 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 880071005810 dimerization interface [polypeptide binding]; other site 880071005811 ATP binding site [chemical binding]; other site 880071005812 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 880071005813 dimerization interface [polypeptide binding]; other site 880071005814 ATP binding site [chemical binding]; other site 880071005815 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 880071005816 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 880071005817 dimerization interface [polypeptide binding]; other site 880071005818 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 880071005819 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 880071005820 dimer interface [polypeptide binding]; other site 880071005821 phosphorylation site [posttranslational modification] 880071005822 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 880071005823 ATP binding site [chemical binding]; other site 880071005824 Mg2+ binding site [ion binding]; other site 880071005825 G-X-G motif; other site 880071005826 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 880071005827 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 880071005828 putative DNA binding site [nucleotide binding]; other site 880071005829 putative Zn2+ binding site [ion binding]; other site 880071005830 AsnC family; Region: AsnC_trans_reg; pfam01037 880071005831 HNH endonuclease; Region: HNH_3; pfam13392 880071005832 DNA-binding domain found in transcription regulators in plants such as APETALA2 and EREBP (ethylene responsive element binding protein). In EREBPs the domain specifically binds to the 11bp GCC box of the ethylene response element (ERE), a promotor...; Region: AP2; cd00018 880071005833 DNA binding site [nucleotide binding] 880071005834 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 880071005835 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 880071005836 Coenzyme A binding pocket [chemical binding]; other site 880071005837 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 880071005838 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 880071005839 Ligand binding site; other site 880071005840 Putative Catalytic site; other site 880071005841 DXD motif; other site 880071005842 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 880071005843 preprotein translocase subunit SecG; Reviewed; Region: secG; PRK06870 880071005844 elongation factor Tu; Reviewed; Region: PRK00049 880071005845 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 880071005846 G1 box; other site 880071005847 GEF interaction site [polypeptide binding]; other site 880071005848 GTP/Mg2+ binding site [chemical binding]; other site 880071005849 Switch I region; other site 880071005850 G2 box; other site 880071005851 G3 box; other site 880071005852 Switch II region; other site 880071005853 G4 box; other site 880071005854 G5 box; other site 880071005855 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 880071005856 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 880071005857 Antibiotic Binding Site [chemical binding]; other site 880071005858 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 880071005859 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 880071005860 substrate binding site [chemical binding]; other site 880071005861 oxyanion hole (OAH) forming residues; other site 880071005862 trimer interface [polypeptide binding]; other site 880071005863 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 880071005864 aromatic arch; other site 880071005865 DCoH dimer interaction site [polypeptide binding]; other site 880071005866 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 880071005867 DCoH tetramer interaction site [polypeptide binding]; other site 880071005868 substrate binding site [chemical binding]; other site 880071005869 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 880071005870 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 880071005871 Walker A/P-loop; other site 880071005872 ATP binding site [chemical binding]; other site 880071005873 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; pfam06470 880071005874 Inter-Src homology 2 (iSH2) helical domain of Class IA Phosphoinositide 3-kinase Regulatory subunits; Region: iSH2_PI3K_IA_R; cl17108 880071005875 heterodimer interface [polypeptide binding]; other site 880071005876 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 880071005877 ABC transporter signature motif; other site 880071005878 Walker B; other site 880071005879 D-loop; other site 880071005880 H-loop/switch region; other site 880071005881 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 880071005882 MgtE intracellular N domain; Region: MgtE_N; pfam03448 880071005883 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 880071005884 Divalent cation transporter; Region: MgtE; pfam01769 880071005885 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 880071005886 catalytic triad [active] 880071005887 conserved cis-peptide bond; other site 880071005888 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 880071005889 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 880071005890 DNA binding site [nucleotide binding] 880071005891 active site 880071005892 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 880071005893 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 880071005894 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 880071005895 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 880071005896 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 880071005897 Conserved hypothetical protein (DUF2461); Region: DUF2461; pfam09365 880071005898 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 880071005899 RpoE-regulated lipoprotein; Provisional; Region: PRK10718 880071005900 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 880071005901 DoxX-like family; Region: DoxX_3; pfam13781 880071005902 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 880071005903 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 880071005904 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 880071005905 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 880071005906 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 880071005907 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 880071005908 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 880071005909 L-aspartate oxidase; Provisional; Region: PRK06175 880071005910 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 880071005911 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 880071005912 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 880071005913 putative Iron-sulfur protein interface [polypeptide binding]; other site 880071005914 proximal heme binding site [chemical binding]; other site 880071005915 distal heme binding site [chemical binding]; other site 880071005916 putative dimer interface [polypeptide binding]; other site 880071005917 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 880071005918 Chorismate mutase type II; Region: CM_2; smart00830 880071005919 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 880071005920 active site 880071005921 catalytic triad [active] 880071005922 oxyanion hole [active] 880071005923 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 880071005924 active site 880071005925 dinuclear metal binding site [ion binding]; other site 880071005926 dimerization interface [polypeptide binding]; other site 880071005927 Predicted membrane protein [Function unknown]; Region: COG4270 880071005928 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 880071005929 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 880071005930 ligand binding site [chemical binding]; other site 880071005931 flexible hinge region; other site 880071005932 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 880071005933 binding surface 880071005934 Tetratricopeptide repeat; Region: TPR_16; pfam13432 880071005935 TPR motif; other site 880071005936 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 880071005937 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 880071005938 binding surface 880071005939 TPR motif; other site 880071005940 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 880071005941 Transposase IS200 like; Region: Y1_Tnp; cl00848 880071005942 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 880071005943 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 880071005944 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880071005945 Walker A/P-loop; other site 880071005946 ATP binding site [chemical binding]; other site 880071005947 Q-loop/lid; other site 880071005948 ABC transporter signature motif; other site 880071005949 Walker B; other site 880071005950 D-loop; other site 880071005951 H-loop/switch region; other site 880071005952 Cell division control protein, negative regulator of transcription [Cell division and chromosome partitioning / Transcription]; Region: CDC39; COG5103 880071005953 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 880071005954 homotrimer interaction site [polypeptide binding]; other site 880071005955 putative active site [active] 880071005956 gliding motility-associated lipoprotein GldB; Region: GldB_lipo; TIGR03514 880071005957 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 880071005958 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39B; cd02418 880071005959 putative active site [active] 880071005960 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 880071005961 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880071005962 Walker A/P-loop; other site 880071005963 ATP binding site [chemical binding]; other site 880071005964 Q-loop/lid; other site 880071005965 ABC transporter signature motif; other site 880071005966 Walker B; other site 880071005967 D-loop; other site 880071005968 H-loop/switch region; other site 880071005969 Phage Tail Collar Domain; Region: Collar; pfam07484 880071005970 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 880071005971 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 880071005972 catalytic residues [active] 880071005973 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 880071005974 catalytic residues [active] 880071005975 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 880071005976 Ferrous iron transport protein B; Region: FeoB_N; pfam02421 880071005977 G1 box; other site 880071005978 GTP/Mg2+ binding site [chemical binding]; other site 880071005979 Switch I region; other site 880071005980 G2 box; other site 880071005981 G3 box; other site 880071005982 Switch II region; other site 880071005983 G4 box; other site 880071005984 G5 box; other site 880071005985 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 880071005986 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 880071005987 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 880071005988 active site 880071005989 motif I; other site 880071005990 motif II; other site 880071005991 SurA N-terminal domain; Region: SurA_N_3; cl07813 880071005992 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 880071005993 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 880071005994 Class I hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classI; cd00643 880071005995 tetramerization interface [polypeptide binding]; other site 880071005996 substrate binding pocket [chemical binding]; other site 880071005997 catalytic residues [active] 880071005998 inhibitor binding sites; inhibition site 880071005999 NADP(H) binding site [chemical binding]; other site 880071006000 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 880071006001 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 880071006002 ADP-ribose binding site [chemical binding]; other site 880071006003 dimer interface [polypeptide binding]; other site 880071006004 active site 880071006005 nudix motif; other site 880071006006 metal binding site [ion binding]; metal-binding site 880071006007 FeS assembly ATPase SufC; Region: sufC; TIGR01978 880071006008 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 880071006009 Walker A/P-loop; other site 880071006010 ATP binding site [chemical binding]; other site 880071006011 Q-loop/lid; other site 880071006012 ABC transporter signature motif; other site 880071006013 Walker B; other site 880071006014 D-loop; other site 880071006015 H-loop/switch region; other site 880071006016 FeS assembly protein SufD; Region: sufD; TIGR01981 880071006017 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 880071006018 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 880071006019 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 880071006020 RNA binding site [nucleotide binding]; other site 880071006021 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 880071006022 RNA binding site [nucleotide binding]; other site 880071006023 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 880071006024 RNA binding site [nucleotide binding]; other site 880071006025 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 880071006026 RNA binding site [nucleotide binding]; other site 880071006027 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 880071006028 RNA binding site [nucleotide binding]; other site 880071006029 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 880071006030 RNA binding site [nucleotide binding]; other site 880071006031 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 880071006032 Protein of unknown function (DUF2911); Region: DUF2911; pfam11138 880071006033 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 880071006034 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 880071006035 acyl-activating enzyme (AAE) consensus motif; other site 880071006036 AMP binding site [chemical binding]; other site 880071006037 active site 880071006038 CoA binding site [chemical binding]; other site 880071006039 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 880071006040 active site clefts [active] 880071006041 zinc binding site [ion binding]; other site 880071006042 dimer interface [polypeptide binding]; other site 880071006043 Protein of unknown function (DUF2089); Region: DUF2089; pfam09862 880071006044 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 880071006045 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 880071006046 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 880071006047 active site 880071006048 oxyanion hole [active] 880071006049 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 880071006050 active site 880071006051 oxyanion hole [active] 880071006052 catalytic triad [active] 880071006053 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 880071006054 GAF domain; Region: GAF_2; pfam13185 880071006055 GAF domain; Region: GAF_3; pfam13492 880071006056 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880071006057 PAS domain; Region: PAS_9; pfam13426 880071006058 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 880071006059 PAS domain; Region: PAS_9; pfam13426 880071006060 putative active site [active] 880071006061 heme pocket [chemical binding]; other site 880071006062 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880071006063 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880071006064 Domain of unknown function (DUF368); Region: DUF368; pfam04018 880071006065 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 880071006066 Peptidase family M23; Region: Peptidase_M23; pfam01551 880071006067 TPR repeat; Region: TPR_11; pfam13414 880071006068 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 880071006069 TPR motif; other site 880071006070 binding surface 880071006071 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 880071006072 TPR motif; other site 880071006073 binding surface 880071006074 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 880071006075 Response regulator receiver domain; Region: Response_reg; pfam00072 880071006076 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 880071006077 active site 880071006078 phosphorylation site [posttranslational modification] 880071006079 intermolecular recognition site; other site 880071006080 dimerization interface [polypeptide binding]; other site 880071006081 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 880071006082 arsenical-resistance protein; Region: acr3; TIGR00832 880071006083 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 880071006084 dimerization interface [polypeptide binding]; other site 880071006085 putative DNA binding site [nucleotide binding]; other site 880071006086 putative Zn2+ binding site [ion binding]; other site 880071006087 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 880071006088 Low molecular weight phosphatase family; Region: LMWPc; cl00105 880071006089 active site 880071006090 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 880071006091 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 880071006092 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 880071006093 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 880071006094 hinge; other site 880071006095 active site 880071006096 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 880071006097 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 880071006098 ligand binding site [chemical binding]; other site 880071006099 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 880071006100 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 880071006101 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 880071006102 active site 880071006103 HIGH motif; other site 880071006104 dimer interface [polypeptide binding]; other site 880071006105 KMSKS motif; other site 880071006106 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 880071006107 RNA binding surface [nucleotide binding]; other site 880071006108 glutamate formiminotransferase; Region: FtcD; TIGR02024 880071006109 Formiminotransferase domain, N-terminal subdomain; Region: FTCD_N; pfam07837 880071006110 Formiminotransferase domain; Region: FTCD; pfam02971 880071006111 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 880071006112 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 880071006113 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 880071006114 ATP-dependent protease Lon; Provisional; Region: PRK13765 880071006115 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 880071006116 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 880071006117 GatB domain; Region: GatB_Yqey; smart00845 880071006118 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 880071006119 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 880071006120 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 880071006121 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 880071006122 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880071006123 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 880071006124 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 880071006125 Leucine rich repeat; Region: LRR_8; pfam13855 880071006126 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 880071006127 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 880071006128 Ion transport protein; Region: Ion_trans; pfam00520 880071006129 Ion channel; Region: Ion_trans_2; pfam07885 880071006130 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 880071006131 Double zinc ribbon; Region: DZR; pfam12773 880071006132 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH); Region: pro_PheOH; cd03348 880071006133 cofactor binding site; other site 880071006134 metal binding site [ion binding]; metal-binding site 880071006135 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 880071006136 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 880071006137 dimer interface [polypeptide binding]; other site 880071006138 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 880071006139 active site 880071006140 Fe binding site [ion binding]; other site 880071006141 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 880071006142 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 880071006143 Walker A/P-loop; other site 880071006144 ATP binding site [chemical binding]; other site 880071006145 Q-loop/lid; other site 880071006146 ABC transporter signature motif; other site 880071006147 Walker B; other site 880071006148 D-loop; other site 880071006149 H-loop/switch region; other site 880071006150 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 880071006151 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 880071006152 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 880071006153 active site 880071006154 metal binding site [ion binding]; metal-binding site 880071006155 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 880071006156 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 880071006157 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 880071006158 active site 880071006159 HYR domain; Region: HYR; pfam02494 880071006160 HYR domain; Region: HYR; pfam02494 880071006161 HYR domain; Region: HYR; pfam02494 880071006162 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 880071006163 excinuclease ABC subunit B; Provisional; Region: PRK05298 880071006164 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 880071006165 ATP binding site [chemical binding]; other site 880071006166 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 880071006167 nucleotide binding region [chemical binding]; other site 880071006168 ATP-binding site [chemical binding]; other site 880071006169 Ultra-violet resistance protein B; Region: UvrB; pfam12344 880071006170 UvrB/uvrC motif; Region: UVR; pfam02151 880071006171 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 880071006172 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 880071006173 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 880071006174 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 880071006175 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 880071006176 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 880071006177 Protein of unknown function (DUF4199); Region: DUF4199; pfam13858 880071006178 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 880071006179 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 880071006180 Walker A/P-loop; other site 880071006181 ATP binding site [chemical binding]; other site 880071006182 Q-loop/lid; other site 880071006183 ABC transporter signature motif; other site 880071006184 Walker B; other site 880071006185 D-loop; other site 880071006186 H-loop/switch region; other site 880071006187 GDYXXLXY protein; Region: GDYXXLXY; pfam14345 880071006188 Predicted membrane protein (DUF2157); Region: DUF2157; pfam09925 880071006189 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 880071006190 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 880071006191 metal ion-dependent adhesion site (MIDAS); other site 880071006192 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 880071006193 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 880071006194 binding surface 880071006195 TPR motif; other site 880071006196 cobalamin synthase; Reviewed; Region: cobS; PRK00235 880071006197 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880071006198 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 880071006199 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 880071006200 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 880071006201 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 880071006202 putative catalytic residue [active] 880071006203 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 880071006204 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 880071006205 catalytic residues [active] 880071006206 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 880071006207 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 880071006208 Walker A motif; other site 880071006209 ATP binding site [chemical binding]; other site 880071006210 Walker B motif; other site 880071006211 arginine finger; other site 880071006212 AAA domain; Region: AAA_21; pfam13304 880071006213 flavoprotein, HI0933 family; Region: TIGR00275 880071006214 GH3 auxin-responsive promoter; Region: GH3; pfam03321 880071006215 Uncharacterized conserved protein [Function unknown]; Region: COG3391 880071006216 Peptidase C25 family N-terminal domain, found in Arg-gingipain (Rgp), Lys-gingipain (Kgp) and related proteins; Region: Peptidase_C25_N; cd02258 880071006217 active site 880071006218 NLI interacting factor-like phosphatase; Region: NIF; pfam03031 880071006219 Prokaryotic RING finger family 1; Region: Prok-RING_1; pfam14446 880071006220 Prokaryotic RING finger family 1; Region: Prok-RING_1; pfam14446 880071006221 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 880071006222 Sporulation related domain; Region: SPOR; pfam05036 880071006223 NnrS protein; Region: NnrS; cl01258 880071006224 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 880071006225 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 880071006226 Mg++ binding site [ion binding]; other site 880071006227 putative catalytic motif [active] 880071006228 putative substrate binding site [chemical binding]; other site 880071006229 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 880071006230 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 880071006231 putative acyl-acceptor binding pocket; other site 880071006232 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 880071006233 putative ABC transporter; Region: ycf24; CHL00085 880071006234 Protein of unknown function (DUF721); Region: DUF721; pfam05258 880071006235 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 880071006236 ligand binding site [chemical binding]; other site 880071006237 PQQ-like domain; Region: PQQ_2; pfam13360 880071006238 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 880071006239 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 880071006240 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 880071006241 Walker A/P-loop; other site 880071006242 ATP binding site [chemical binding]; other site 880071006243 Q-loop/lid; other site 880071006244 ABC transporter signature motif; other site 880071006245 Walker B; other site 880071006246 D-loop; other site 880071006247 H-loop/switch region; other site 880071006248 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 880071006249 Glycerophosphodiester phosphodiesterase domain of Agrobacterium tumefaciens and similar proteins; Region: GDPD_AtGDE_like; cd08566 880071006250 putative active site [active] 880071006251 catalytic site [active] 880071006252 putative metal binding site [ion binding]; other site 880071006253 oligomer interface [polypeptide binding]; other site 880071006254 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 880071006255 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 880071006256 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 880071006257 Walker A motif; other site 880071006258 ATP binding site [chemical binding]; other site 880071006259 Walker B motif; other site 880071006260 arginine finger; other site 880071006261 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 880071006262 recombination factor protein RarA; Reviewed; Region: PRK13342 880071006263 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 880071006264 Walker A motif; other site 880071006265 ATP binding site [chemical binding]; other site 880071006266 Walker B motif; other site 880071006267 arginine finger; other site 880071006268 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 880071006269 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 880071006270 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880071006271 NAD(P) binding site [chemical binding]; other site 880071006272 active site 880071006273 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 880071006274 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 880071006275 ligand binding site [chemical binding]; other site 880071006276 flexible hinge region; other site 880071006277 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 880071006278 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 880071006279 lipoprotein signal peptidase; Provisional; Region: PRK14788 880071006280 lipoprotein signal peptidase; Provisional; Region: PRK14787 880071006281 Protein of unknown function (DUF1464); Region: DUF1464; cl17839 880071006282 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14329 880071006283 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 880071006284 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 880071006285 FeS/SAM binding site; other site 880071006286 TRAM domain; Region: TRAM; pfam01938 880071006287 Peptidase S8 family domain, uncharacterized subfamily 9; Region: Peptidases_S8_9; cd07493 880071006288 active site 880071006289 catalytic triad [active] 880071006290 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880071006291 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 880071006292 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 880071006293 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 880071006294 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 880071006295 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 880071006296 S-adenosylmethionine binding site [chemical binding]; other site 880071006297 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 880071006298 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 880071006299 GAF domain; Region: GAF_2; pfam13185 880071006300 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 880071006301 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880071006302 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 880071006303 TRAM domain; Region: TRAM; cl01282 880071006304 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 880071006305 S-adenosylmethionine binding site [chemical binding]; other site 880071006306 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 880071006307 putative rRNA binding site [nucleotide binding]; other site 880071006308 aldehyde dehydrogenase family 7 member; Region: PLN02315 880071006309 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 880071006310 tetrameric interface [polypeptide binding]; other site 880071006311 NAD binding site [chemical binding]; other site 880071006312 catalytic residues [active] 880071006313 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 880071006314 GTP cyclohydrolase I; Provisional; Region: PLN03044 880071006315 active site 880071006316 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 880071006317 active site 880071006318 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880071006319 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880071006320 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 880071006321 dimerization interface [polypeptide binding]; other site 880071006322 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 880071006323 dimer interface [polypeptide binding]; other site 880071006324 phosphorylation site [posttranslational modification] 880071006325 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 880071006326 ATP binding site [chemical binding]; other site 880071006327 Mg2+ binding site [ion binding]; other site 880071006328 G-X-G motif; other site 880071006329 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 880071006330 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 880071006331 active site 880071006332 phosphorylation site [posttranslational modification] 880071006333 intermolecular recognition site; other site 880071006334 dimerization interface [polypeptide binding]; other site 880071006335 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 880071006336 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 880071006337 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 880071006338 asparaginyl-tRNA synthetase; Region: asnS; TIGR00457 880071006339 C2 domain; Region: C2; cl14603 880071006340 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880071006341 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 880071006342 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 880071006343 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 880071006344 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880071006345 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 880071006346 NAD(P) binding site [chemical binding]; other site 880071006347 active site 880071006348 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 880071006349 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 880071006350 trimer interface [polypeptide binding]; other site 880071006351 putative metal binding site [ion binding]; other site 880071006352 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880071006353 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 880071006354 dimer interface [polypeptide binding]; other site 880071006355 phosphorylation site [posttranslational modification] 880071006356 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 880071006357 ATP binding site [chemical binding]; other site 880071006358 Mg2+ binding site [ion binding]; other site 880071006359 G-X-G motif; other site 880071006360 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 880071006361 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 880071006362 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 880071006363 active site 880071006364 hypothetical protein; Validated; Region: PRK02101 880071006365 triosephosphate isomerase; Provisional; Region: PRK14567 880071006366 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 880071006367 substrate binding site [chemical binding]; other site 880071006368 dimer interface [polypeptide binding]; other site 880071006369 catalytic triad [active] 880071006370 Transposase IS200 like; Region: Y1_Tnp; cl00848 880071006371 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 880071006372 four helix bundle protein; Region: TIGR02436 880071006373 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 880071006374 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 880071006375 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 880071006376 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 880071006377 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 880071006378 RNA binding site [nucleotide binding]; other site 880071006379 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 880071006380 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 880071006381 transcription termination factor Rho; Provisional; Region: PRK12608 880071006382 RNA binding site [nucleotide binding]; other site 880071006383 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 880071006384 multimer interface [polypeptide binding]; other site 880071006385 Walker A motif; other site 880071006386 ATP binding site [chemical binding]; other site 880071006387 Walker B motif; other site 880071006388 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 880071006389 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u2; cd11494 880071006390 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 880071006391 Na binding site [ion binding]; other site 880071006392 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 880071006393 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 880071006394 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 880071006395 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 880071006396 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 880071006397 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 880071006398 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 880071006399 Domain of unknown function DUF77; Region: DUF77; cl00307 880071006400 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 880071006401 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 880071006402 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 880071006403 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 880071006404 NlpC/P60 family; Region: NLPC_P60; pfam00877 880071006405 UPF0126 domain; Region: UPF0126; pfam03458 880071006406 Predicted membrane protein [Function unknown]; Region: COG2860 880071006407 UPF0126 domain; Region: UPF0126; pfam03458 880071006408 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 880071006409 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 880071006410 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 880071006411 catalytic triad [active] 880071006412 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 880071006413 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 880071006414 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 880071006415 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 880071006416 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 880071006417 Protein export membrane protein; Region: SecD_SecF; pfam02355 880071006418 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 880071006419 Two component regulator propeller; Region: Reg_prop; pfam07494 880071006420 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 880071006421 GAF domain; Region: GAF_3; pfam13492 880071006422 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 880071006423 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880071006424 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 880071006425 enolase; Provisional; Region: eno; PRK00077 880071006426 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 880071006427 dimer interface [polypeptide binding]; other site 880071006428 metal binding site [ion binding]; metal-binding site 880071006429 substrate binding pocket [chemical binding]; other site 880071006430 GNT-I family; Region: GNT-I; pfam03071 880071006431 DNA polymerase III subunit beta; Validated; Region: PRK05643 880071006432 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 880071006433 putative DNA binding surface [nucleotide binding]; other site 880071006434 dimer interface [polypeptide binding]; other site 880071006435 beta-clamp/clamp loader binding surface; other site 880071006436 beta-clamp/translesion DNA polymerase binding surface; other site 880071006437 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 880071006438 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 880071006439 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 880071006440 catalytic site [active] 880071006441 subunit interface [polypeptide binding]; other site 880071006442 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 880071006443 cystathionine beta-synthase; Region: cysta_beta; TIGR01137 880071006444 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 880071006445 dimer interface [polypeptide binding]; other site 880071006446 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880071006447 catalytic residue [active] 880071006448 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 880071006449 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 880071006450 Major Facilitator Superfamily; Region: MFS_1; pfam07690 880071006451 putative substrate translocation pore; other site 880071006452 HD domain; Region: HD_3; pfam13023 880071006453 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 880071006454 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 880071006455 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 880071006456 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 880071006457 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 880071006458 Tetratricopeptide repeat; Region: TPR_16; pfam13432 880071006459 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 880071006460 TPR motif; other site 880071006461 binding surface 880071006462 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 880071006463 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 880071006464 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 880071006465 ligand binding site [chemical binding]; other site 880071006466 DDE superfamily endonuclease; Region: DDE_3; pfam13358 880071006467 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 880071006468 Protein of unknown function (DUF3050); Region: DUF3050; pfam11251 880071006469 von Willebrand factor type A domain; Region: VWA_2; pfam13519 880071006470 metal ion-dependent adhesion site (MIDAS); other site 880071006471 Domain of unknown function (DUF4221); Region: DUF4221; pfam13970 880071006472 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 880071006473 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 880071006474 HlyD family secretion protein; Region: HlyD_3; pfam13437 880071006475 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 880071006476 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 880071006477 Beta-lactamase; Region: Beta-lactamase; cl17358 880071006478 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 880071006479 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 880071006480 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 880071006481 binding surface 880071006482 TPR motif; other site 880071006483 TPR repeat; Region: TPR_11; pfam13414 880071006484 TPR repeat; Region: TPR_11; pfam13414 880071006485 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 880071006486 TPR motif; other site 880071006487 binding surface 880071006488 Caspase domain; Region: Peptidase_C14; pfam00656 880071006489 short chain dehydrogenase; Provisional; Region: PRK06197 880071006490 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 880071006491 putative NAD(P) binding site [chemical binding]; other site 880071006492 active site 880071006493 Helix-turn-helix domain; Region: HTH_18; pfam12833 880071006494 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 880071006495 ornithine aminotransferase; Region: Orn_aminotrans; TIGR01885 880071006496 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 880071006497 inhibitor-cofactor binding pocket; inhibition site 880071006498 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880071006499 catalytic residue [active] 880071006500 PAS fold; Region: PAS_3; pfam08447 880071006501 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880071006502 DDE superfamily endonuclease; Region: DDE_3; pfam13358 880071006503 (2R)-phospho-3-sulfolactate synthase (ComA); Region: ComA; pfam02679 880071006504 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 880071006505 Hsp70 protein; Region: HSP70; pfam00012 880071006506 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 880071006507 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 880071006508 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 880071006509 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880071006510 Prokaryotic RING finger family 1; Region: Prok-RING_1; pfam14446 880071006511 RDD family; Region: RDD; pfam06271 880071006512 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 880071006513 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 880071006514 Glycosyltransferase like family 2; Region: Glyco_tranf_2_2; pfam10111 880071006515 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 880071006516 active site 880071006517 CrcB-like protein; Region: CRCB; pfam02537 880071006518 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 880071006519 core domain interface [polypeptide binding]; other site 880071006520 delta subunit interface [polypeptide binding]; other site 880071006521 epsilon subunit interface [polypeptide binding]; other site 880071006522 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 880071006523 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 880071006524 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 880071006525 beta subunit interaction interface [polypeptide binding]; other site 880071006526 Walker A motif; other site 880071006527 ATP binding site [chemical binding]; other site 880071006528 Walker B motif; other site 880071006529 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 880071006530 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 880071006531 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 880071006532 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 880071006533 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 880071006534 ATP synthase subunit C; Region: ATP-synt_C; cl00466 880071006535 ATP synthase A chain; Region: ATP-synt_A; cl00413 880071006536 peptide chain release factor 1; Validated; Region: prfA; PRK00591 880071006537 This domain is found in peptide chain release factors; Region: PCRF; smart00937 880071006538 RF-1 domain; Region: RF-1; pfam00472 880071006539 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 880071006540 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 880071006541 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880071006542 catalytic residue [active] 880071006543 Archaeal putative transposase ISC1217; Region: DDE_Tnp_2; pfam04693 880071006544 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 880071006545 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 880071006546 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 880071006547 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 880071006548 metal ion-dependent adhesion site (MIDAS); other site 880071006549 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 880071006550 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 880071006551 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 880071006552 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 880071006553 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 880071006554 active site 880071006555 HslU subunit interaction site [polypeptide binding]; other site 880071006556 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 880071006557 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 880071006558 Walker A/P-loop; other site 880071006559 ATP binding site [chemical binding]; other site 880071006560 Q-loop/lid; other site 880071006561 ABC transporter signature motif; other site 880071006562 Walker B; other site 880071006563 D-loop; other site 880071006564 H-loop/switch region; other site 880071006565 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 880071006566 active site 880071006567 NTP binding site [chemical binding]; other site 880071006568 metal binding triad [ion binding]; metal-binding site 880071006569 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 880071006570 dimer interface [polypeptide binding]; other site 880071006571 active site 880071006572 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 880071006573 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 880071006574 Walker A/P-loop; other site 880071006575 ATP binding site [chemical binding]; other site 880071006576 Q-loop/lid; other site 880071006577 ABC transporter signature motif; other site 880071006578 Walker B; other site 880071006579 D-loop; other site 880071006580 H-loop/switch region; other site 880071006581 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 880071006582 HemN C-terminal domain; Region: HemN_C; pfam06969 880071006583 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 880071006584 Active site serine [active] 880071006585 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 880071006586 PspC domain; Region: PspC; pfam04024 880071006587 PspC domain; Region: PspC; pfam04024 880071006588 phage shock protein C; Region: phageshock_pspC; TIGR02978 880071006589 Predicted transcriptional regulators [Transcription]; Region: COG1695 880071006590 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 880071006591 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 880071006592 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 880071006593 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 880071006594 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 880071006595 N-terminal plug; other site 880071006596 ligand-binding site [chemical binding]; other site 880071006597 Bacterial proteins similar to Porphyromonas gingivalis HmuY; Region: HmuY; cd12105 880071006598 AAA domain; Region: AAA_21; pfam13304 880071006599 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880071006600 Walker A/P-loop; other site 880071006601 ATP binding site [chemical binding]; other site 880071006602 AAA domain; Region: AAA_21; pfam13304 880071006603 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 880071006604 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 880071006605 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 880071006606 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 880071006607 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 880071006608 HlyD family secretion protein; Region: HlyD_3; pfam13437 880071006609 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 880071006610 Protein export membrane protein; Region: SecD_SecF; cl14618 880071006611 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 880071006612 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 880071006613 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 880071006614 active site 880071006615 Tetratricopeptide repeat; Region: TPR_16; pfam13432 880071006616 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 880071006617 binding surface 880071006618 TPR motif; other site 880071006619 TPR repeat; Region: TPR_11; pfam13414 880071006620 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 880071006621 binding surface 880071006622 Tetratricopeptide repeat; Region: TPR_16; pfam13432 880071006623 TPR motif; other site 880071006624 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 880071006625 nucleotide binding site [chemical binding]; other site 880071006626 substrate binding site [chemical binding]; other site 880071006627 fumarate hydratase; Reviewed; Region: fumC; PRK00485 880071006628 Class II fumarases; Region: Fumarase_classII; cd01362 880071006629 active site 880071006630 tetramer interface [polypeptide binding]; other site 880071006631 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 880071006632 DDE superfamily endonuclease; Region: DDE_4; cl17710 880071006633 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 880071006634 Integrase core domain; Region: rve; pfam00665 880071006635 DDE domain; Region: DDE_Tnp_IS240; pfam13610 880071006636 Integrase core domain; Region: rve_3; pfam13683 880071006637 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880071006638 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 880071006639 Ligand binding site; other site 880071006640 Putative Catalytic site; other site 880071006641 DXD motif; other site 880071006642 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 880071006643 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 880071006644 NAD(P) binding site [chemical binding]; other site 880071006645 catalytic residues [active] 880071006646 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 880071006647 dimer interface [polypeptide binding]; other site 880071006648 allosteric magnesium binding site [ion binding]; other site 880071006649 active site 880071006650 aspartate-rich active site metal binding site; other site 880071006651 Schiff base residues; other site 880071006652 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 880071006653 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880071006654 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 880071006655 rRNA binding site [nucleotide binding]; other site 880071006656 predicted 30S ribosome binding site; other site 880071006657 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 880071006658 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 880071006659 30S ribosomal protein S13; Region: bact_S13; TIGR03631 880071006660 30S ribosomal protein S11; Validated; Region: PRK05309 880071006661 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 880071006662 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 880071006663 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 880071006664 RNA binding surface [nucleotide binding]; other site 880071006665 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 880071006666 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 880071006667 alphaNTD - beta interaction site [polypeptide binding]; other site 880071006668 alphaNTD homodimer interface [polypeptide binding]; other site 880071006669 alphaNTD - beta' interaction site [polypeptide binding]; other site 880071006670 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 880071006671 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 880071006672 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 880071006673 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 880071006674 active site 880071006675 phosphorylation site [posttranslational modification] 880071006676 intermolecular recognition site; other site 880071006677 dimerization interface [polypeptide binding]; other site 880071006678 PglZ domain; Region: PglZ; pfam08665 880071006679 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 880071006680 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 880071006681 putative active site [active] 880071006682 Zn binding site [ion binding]; other site 880071006683 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 880071006684 S17 interaction site [polypeptide binding]; other site 880071006685 S8 interaction site; other site 880071006686 16S rRNA interaction site [nucleotide binding]; other site 880071006687 streptomycin interaction site [chemical binding]; other site 880071006688 23S rRNA interaction site [nucleotide binding]; other site 880071006689 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 880071006690 30S ribosomal protein S7; Validated; Region: PRK05302 880071006691 elongation factor G; Reviewed; Region: PRK12739 880071006692 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 880071006693 G1 box; other site 880071006694 putative GEF interaction site [polypeptide binding]; other site 880071006695 GTP/Mg2+ binding site [chemical binding]; other site 880071006696 Switch I region; other site 880071006697 G2 box; other site 880071006698 G3 box; other site 880071006699 Switch II region; other site 880071006700 G4 box; other site 880071006701 G5 box; other site 880071006702 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 880071006703 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 880071006704 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 880071006705 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 880071006706 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 880071006707 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 880071006708 active site 880071006709 metal binding site [ion binding]; metal-binding site 880071006710 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 880071006711 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 880071006712 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 880071006713 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 880071006714 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 880071006715 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 880071006716 Ligand Binding Site [chemical binding]; other site 880071006717 Universal stress protein family; Region: Usp; pfam00582 880071006718 Ligand Binding Site [chemical binding]; other site 880071006719 Predicted amidohydrolase [General function prediction only]; Region: COG0388 880071006720 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 880071006721 active site 880071006722 catalytic triad [active] 880071006723 dimer interface [polypeptide binding]; other site 880071006724 membrane ATPase/protein kinase; Provisional; Region: PRK09435 880071006725 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 880071006726 Walker A; other site 880071006727 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 880071006728 CHASE2 domain; Region: CHASE2; pfam05226 880071006729 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 880071006730 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 880071006731 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 880071006732 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 880071006733 CoenzymeA binding site [chemical binding]; other site 880071006734 subunit interaction site [polypeptide binding]; other site 880071006735 PHB binding site; other site 880071006736 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 880071006737 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 880071006738 active site 880071006739 Protein of unknown function, DUF399; Region: DUF399; pfam04187 880071006740 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 880071006741 ABC1 family; Region: ABC1; cl17513 880071006742 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 880071006743 active site 880071006744 ATP binding site [chemical binding]; other site 880071006745 Uncharacterized conserved protein [Function unknown]; Region: COG3339 880071006746 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 880071006747 Eye pigment and drug resistance transporter subfamily G of the ATP-binding cassette superfamily; Region: ABCG_EPDR; cd03213 880071006748 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 880071006749 Walker A/P-loop; other site 880071006750 ATP binding site [chemical binding]; other site 880071006751 Q-loop/lid; other site 880071006752 ABC transporter signature motif; other site 880071006753 Walker B; other site 880071006754 D-loop; other site 880071006755 H-loop/switch region; other site 880071006756 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 880071006757 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 880071006758 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 880071006759 RNA polymerase sigma factor; Provisional; Region: PRK12544 880071006760 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 880071006761 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 880071006762 dimerization interface [polypeptide binding]; other site 880071006763 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 880071006764 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 880071006765 PAS domain S-box; Region: sensory_box; TIGR00229 880071006766 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 880071006767 putative active site [active] 880071006768 heme pocket [chemical binding]; other site 880071006769 PAS fold; Region: PAS_4; pfam08448 880071006770 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 880071006771 putative active site [active] 880071006772 heme pocket [chemical binding]; other site 880071006773 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880071006774 CheB methylesterase; Region: CheB_methylest; pfam01339 880071006775 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 880071006776 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 880071006777 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 880071006778 Ion transport protein; Region: Ion_trans; pfam00520 880071006779 Ion channel; Region: Ion_trans_2; pfam07885 880071006780 Nucleolar protein 12 (25kDa); Region: Nop25; pfam09805 880071006781 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 880071006782 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 880071006783 MarR family; Region: MarR_2; cl17246 880071006784 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 880071006785 RimM N-terminal domain; Region: RimM; pfam01782 880071006786 PRC-barrel domain; Region: PRC; pfam05239 880071006787 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 880071006788 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 880071006789 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 880071006790 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 880071006791 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 880071006792 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 880071006793 phosphoglyceromutase; Provisional; Region: PRK05434 880071006794 Peptidase family M54, also called archaemetzincins or archaelysins; Region: Peptidase_M54; cd11375 880071006795 active site 880071006796 Zn binding site [ion binding]; other site 880071006797 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 880071006798 active site 880071006799 catalytic residues [active] 880071006800 RDD family; Region: RDD; cl00746 880071006801 YHYH protein; Region: YHYH; pfam14240 880071006802 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 880071006803 Uncharacterized protein related to the periplasmic component of the Tol biopolymer transport system [Function unknown]; Region: COG4946 880071006804 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 880071006805 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 880071006806 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 880071006807 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 880071006808 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 880071006809 protein binding site [polypeptide binding]; other site 880071006810 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 880071006811 Domain interface; other site 880071006812 Peptide binding site; other site 880071006813 Active site tetrad [active] 880071006814 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 880071006815 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 880071006816 NADP binding site [chemical binding]; other site 880071006817 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 880071006818 dimer interface [polypeptide binding]; other site 880071006819 FMN binding site [chemical binding]; other site 880071006820 Predicted transcriptional regulators [Transcription]; Region: COG1733 880071006821 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 880071006822 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 880071006823 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 880071006824 Putative NAD(P)-binding; Region: NAD_binding_7; cl17660 880071006825 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 880071006826 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 880071006827 hydrophobic ligand binding site; other site 880071006828 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 880071006829 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 880071006830 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 880071006831 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 880071006832 motif II; other site 880071006833 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 880071006834 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 880071006835 acyl-activating enzyme (AAE) consensus motif; other site 880071006836 AMP binding site [chemical binding]; other site 880071006837 active site 880071006838 CoA binding site [chemical binding]; other site 880071006839 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 880071006840 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 880071006841 S-adenosylmethionine binding site [chemical binding]; other site 880071006842 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 880071006843 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 880071006844 Sporulation related domain; Region: SPOR; pfam05036 880071006845 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 880071006846 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 880071006847 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 880071006848 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 880071006849 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 880071006850 Protein of unknown function (DUF952); Region: DUF952; pfam06108 880071006851 DEAD-like helicases superfamily; Region: DEXDc; smart00487 880071006852 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 880071006853 ATP binding site [chemical binding]; other site 880071006854 putative Mg++ binding site [ion binding]; other site 880071006855 T5orf172 domain; Region: T5orf172; pfam10544 880071006856 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 880071006857 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 880071006858 putative acyl-acceptor binding pocket; other site 880071006859 30S ribosomal protein S16; Provisional; Region: rpsP; PRK14521 880071006860 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 880071006861 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 880071006862 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 880071006863 generic binding surface II; other site 880071006864 ssDNA binding site; other site 880071006865 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 880071006866 ATP binding site [chemical binding]; other site 880071006867 putative Mg++ binding site [ion binding]; other site 880071006868 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 880071006869 nucleotide binding region [chemical binding]; other site 880071006870 ATP-binding site [chemical binding]; other site 880071006871 RDD family; Region: RDD; pfam06271 880071006872 Transposase IS200 like; Region: Y1_Tnp; cl00848 880071006873 GTP-binding protein LepA; Provisional; Region: PRK05433 880071006874 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 880071006875 G1 box; other site 880071006876 putative GEF interaction site [polypeptide binding]; other site 880071006877 GTP/Mg2+ binding site [chemical binding]; other site 880071006878 Switch I region; other site 880071006879 G2 box; other site 880071006880 G3 box; other site 880071006881 Switch II region; other site 880071006882 G4 box; other site 880071006883 G5 box; other site 880071006884 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 880071006885 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 880071006886 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 880071006887 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 880071006888 catalytic core [active] 880071006889 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 880071006890 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 880071006891 dimer interface [polypeptide binding]; other site 880071006892 substrate binding site [chemical binding]; other site 880071006893 metal binding site [ion binding]; metal-binding site 880071006894 Predicted aminopeptidase (DUF2265); Region: DUF2265; cl17720 880071006895 AAA domain; Region: AAA_21; pfam13304 880071006896 AAA domain; Region: AAA_21; pfam13304 880071006897 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880071006898 Walker B; other site 880071006899 D-loop; other site 880071006900 H-loop/switch region; other site 880071006901 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 880071006902 oligomerization interface [polypeptide binding]; other site 880071006903 active site 880071006904 metal binding site [ion binding]; metal-binding site 880071006905 thiamine monophosphate kinase; Provisional; Region: PRK05731 880071006906 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 880071006907 ATP binding site [chemical binding]; other site 880071006908 dimerization interface [polypeptide binding]; other site 880071006909 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 880071006910 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 880071006911 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 880071006912 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 880071006913 Coenzyme A binding pocket [chemical binding]; other site 880071006914 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 880071006915 TPR repeat; Region: TPR_11; pfam13414 880071006916 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 880071006917 TPR motif; other site 880071006918 TPR repeat; Region: TPR_11; pfam13414 880071006919 binding surface 880071006920 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 880071006921 binding surface 880071006922 TPR motif; other site 880071006923 TPR repeat; Region: TPR_11; pfam13414 880071006924 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 880071006925 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 880071006926 metal binding site [ion binding]; metal-binding site 880071006927 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 880071006928 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 880071006929 dimer interface [polypeptide binding]; other site 880071006930 active site 880071006931 CoA binding pocket [chemical binding]; other site 880071006932 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 880071006933 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 880071006934 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880071006935 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 880071006936 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 880071006937 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 880071006938 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 880071006939 Predicted permeases [General function prediction only]; Region: COG0795 880071006940 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 880071006941 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 880071006942 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 880071006943 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 880071006944 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 880071006945 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 880071006946 S-adenosylmethionine binding site [chemical binding]; other site 880071006947 Universal stress protein family; Region: Usp; pfam00582 880071006948 Ligand Binding Site [chemical binding]; other site 880071006949 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 880071006950 Ligand Binding Site [chemical binding]; other site 880071006951 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 880071006952 binding surface 880071006953 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880071006954 TPR motif; other site 880071006955 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880071006956 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880071006957 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 880071006958 binding surface 880071006959 TPR motif; other site 880071006960 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880071006961 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880071006962 KpsF/GutQ family protein; Region: kpsF; TIGR00393 880071006963 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 880071006964 putative active site [active] 880071006965 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 880071006966 transcription termination factor Rho; Provisional; Region: rho; PRK09376 880071006967 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 880071006968 Protein of unknown function (Porph_ging); Region: Porph_ging; cl09903 880071006969 Protein of unknown function (Porph_ging); Region: Porph_ging; cl09903 880071006970 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880071006971 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 880071006972 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 880071006973 NAD(P) binding site [chemical binding]; other site 880071006974 homotetramer interface [polypeptide binding]; other site 880071006975 homodimer interface [polypeptide binding]; other site 880071006976 active site 880071006977 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 880071006978 S-adenosylmethionine binding site [chemical binding]; other site 880071006979 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 880071006980 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 880071006981 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 880071006982 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 880071006983 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 880071006984 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 880071006985 Ras-like protein; Provisional; Region: PTZ00369 880071006986 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 880071006987 G1 box; other site 880071006988 GTP/Mg2+ binding site [chemical binding]; other site 880071006989 G2 box; other site 880071006990 Switch I region; other site 880071006991 G3 box; other site 880071006992 Switch II region; other site 880071006993 G4 box; other site 880071006994 G5 box; other site 880071006995 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 880071006996 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 880071006997 metal-binding site 880071006998 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 880071006999 Catalytic domain of Protein Kinases; Region: PKc; cd00180 880071007000 active site 880071007001 ATP binding site [chemical binding]; other site 880071007002 substrate binding site [chemical binding]; other site 880071007003 activation loop (A-loop); other site 880071007004 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880071007005 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880071007006 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 880071007007 binding surface 880071007008 TPR motif; other site 880071007009 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880071007010 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880071007011 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880071007012 Tetratricopeptide repeat; Region: TPR_10; pfam13374 880071007013 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 880071007014 homodimer interface [polypeptide binding]; other site 880071007015 substrate-cofactor binding pocket; other site 880071007016 Aminotransferase class IV; Region: Aminotran_4; pfam01063 880071007017 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880071007018 catalytic residue [active] 880071007019 Protein of unknown function (DUF1449); Region: DUF1449; pfam07290 880071007020 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 880071007021 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 880071007022 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 880071007023 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 880071007024 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 880071007025 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 880071007026 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 880071007027 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 880071007028 active site 880071007029 dimer interface [polypeptide binding]; other site 880071007030 motif 1; other site 880071007031 motif 2; other site 880071007032 motif 3; other site 880071007033 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 880071007034 anticodon binding site; other site 880071007035 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 880071007036 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 880071007037 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 880071007038 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 880071007039 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 880071007040 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 880071007041 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 880071007042 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 880071007043 putative translocon binding site; other site 880071007044 protein-rRNA interface [nucleotide binding]; other site 880071007045 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 880071007046 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 880071007047 G-X-X-G motif; other site 880071007048 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 880071007049 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 880071007050 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 880071007051 active site 880071007052 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 880071007053 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 880071007054 active site 880071007055 (T/H)XGH motif; other site 880071007056 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 880071007057 ligand binding site [chemical binding]; other site 880071007058 Uncharacterized ACR, COG1678; Region: DUF179; pfam02622 880071007059 GH3 auxin-responsive promoter; Region: GH3; pfam03321 880071007060 TPR repeat; Region: TPR_11; pfam13414 880071007061 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 880071007062 binding surface 880071007063 TPR motif; other site 880071007064 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 880071007065 binding surface 880071007066 TPR motif; other site 880071007067 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 880071007068 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 880071007069 active site 880071007070 motif I; other site 880071007071 motif II; other site 880071007072 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 880071007073 putative active site pocket [active] 880071007074 4-fold oligomerization interface [polypeptide binding]; other site 880071007075 metal binding residues [ion binding]; metal-binding site 880071007076 3-fold/trimer interface [polypeptide binding]; other site 880071007077 Imelysin; Region: Peptidase_M75; cl09159 880071007078 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 880071007079 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 880071007080 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 880071007081 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 880071007082 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 880071007083 Substrate binding site; other site 880071007084 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 880071007085 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 880071007086 active site 880071007087 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 880071007088 TRL-like protein family; Region: TRL; pfam13146 880071007089 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 880071007090 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 880071007091 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 880071007092 active site 880071007093 Zn binding site [ion binding]; other site 880071007094 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 880071007095 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 880071007096 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 880071007097 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 880071007098 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 880071007099 Herpesvirus Glycoprotein B; Region: Glycoprotein_B; pfam00606 880071007100 Permease; Region: Permease; pfam02405 880071007101 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 880071007102 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 880071007103 active site residue [active] 880071007104 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 880071007105 ligand binding site [chemical binding]; other site 880071007106 protoporphyrinogen oxidase; Region: PLN02576 880071007107 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 880071007108 prolyl-tRNA synthetase; Provisional; Region: PRK08661 880071007109 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 880071007110 dimer interface [polypeptide binding]; other site 880071007111 motif 1; other site 880071007112 active site 880071007113 motif 2; other site 880071007114 motif 3; other site 880071007115 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 880071007116 anticodon binding site; other site 880071007117 zinc-binding site [ion binding]; other site 880071007118 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 880071007119 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 880071007120 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 880071007121 Caspase domain; Region: Peptidase_C14; pfam00656 880071007122 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 880071007123 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 880071007124 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 880071007125 ABC-ATPase subunit interface; other site 880071007126 dimer interface [polypeptide binding]; other site 880071007127 putative PBP binding regions; other site 880071007128 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 880071007129 active site 880071007130 MoxR-like ATPases [General function prediction only]; Region: COG0714 880071007131 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 880071007132 Walker A motif; other site 880071007133 ATP binding site [chemical binding]; other site 880071007134 Walker B motif; other site 880071007135 arginine finger; other site 880071007136 Transposase IS200 like; Region: Y1_Tnp; cl00848 880071007137 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 880071007138 L11 interface [polypeptide binding]; other site 880071007139 putative EF-Tu interaction site [polypeptide binding]; other site 880071007140 putative EF-G interaction site [polypeptide binding]; other site 880071007141 Protein of unknown function (DUF4231); Region: DUF4231; pfam14015 880071007142 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 880071007143 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 880071007144 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 880071007145 MG2 domain; Region: A2M_N; pfam01835 880071007146 Alpha-2-macroglobulin family; Region: A2M; pfam00207 880071007147 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 880071007148 surface patch; other site 880071007149 thioester region; other site 880071007150 specificity defining residues; other site 880071007151 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 880071007152 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 880071007153 MutS domain III; Region: MutS_III; pfam05192 880071007154 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880071007155 Walker A/P-loop; other site 880071007156 ATP binding site [chemical binding]; other site 880071007157 Q-loop/lid; other site 880071007158 ABC transporter signature motif; other site 880071007159 Walker B; other site 880071007160 D-loop; other site 880071007161 H-loop/switch region; other site 880071007162 Smr domain; Region: Smr; pfam01713 880071007163 PAS domain S-box; Region: sensory_box; TIGR00229 880071007164 PAS fold; Region: PAS_4; pfam08448 880071007165 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 880071007166 PAS fold; Region: PAS_3; pfam08447 880071007167 putative active site [active] 880071007168 heme pocket [chemical binding]; other site 880071007169 PAS domain S-box; Region: sensory_box; TIGR00229 880071007170 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 880071007171 putative active site [active] 880071007172 heme pocket [chemical binding]; other site 880071007173 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 880071007174 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 880071007175 putative active site [active] 880071007176 heme pocket [chemical binding]; other site 880071007177 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 880071007178 dimer interface [polypeptide binding]; other site 880071007179 phosphorylation site [posttranslational modification] 880071007180 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 880071007181 ATP binding site [chemical binding]; other site 880071007182 Mg2+ binding site [ion binding]; other site 880071007183 G-X-G motif; other site 880071007184 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 880071007185 DDE superfamily endonuclease; Region: DDE_4; cl17710 880071007186 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 880071007187 Uncharacterized conserved protein [Function unknown]; Region: COG3937 880071007188 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 880071007189 ABC1 family; Region: ABC1; cl17513 880071007190 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 880071007191 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 880071007192 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 880071007193 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 880071007194 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 880071007195 Coenzyme A binding pocket [chemical binding]; other site 880071007196 ribosome recycling factor; Reviewed; Region: frr; PRK00083 880071007197 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 880071007198 hinge region; other site 880071007199 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 880071007200 Dihydroneopterin aldolase; Region: FolB; pfam02152 880071007201 active site 880071007202 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 880071007203 N-acetyltransferase; Region: Acetyltransf_2; cl00949 880071007204 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 880071007205 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 880071007206 Surface antigen; Region: Bac_surface_Ag; pfam01103 880071007207 flavodoxin FldA; Validated; Region: PRK09267 880071007208 RDD family; Region: RDD; pfam06271 880071007209 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 880071007210 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 880071007211 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 880071007212 DNA replication factor Dna2; Region: Dna2; pfam08696 880071007213 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 880071007214 AAA domain; Region: AAA_30; pfam13604 880071007215 AAA domain; Region: AAA_11; pfam13086 880071007216 AAA domain; Region: AAA_12; pfam13087 880071007217 anthranilate synthase component I, non-proteobacterial lineages; Region: trpE_most; TIGR00564 880071007218 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 880071007219 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 880071007220 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 880071007221 Glutamine amidotransferase class-I; Region: GATase; pfam00117 880071007222 glutamine binding [chemical binding]; other site 880071007223 catalytic triad [active] 880071007224 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 880071007225 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 880071007226 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 880071007227 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 880071007228 active site 880071007229 ribulose/triose binding site [chemical binding]; other site 880071007230 phosphate binding site [ion binding]; other site 880071007231 substrate (anthranilate) binding pocket [chemical binding]; other site 880071007232 product (indole) binding pocket [chemical binding]; other site 880071007233 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 880071007234 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 880071007235 Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly...; Region: Macro; cl00019 880071007236 ADP-ribose binding site [chemical binding]; other site 880071007237 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 880071007238 PhoH-like protein; Region: PhoH; pfam02562 880071007239 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 880071007240 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 880071007241 NAD binding site [chemical binding]; other site 880071007242 putative substrate binding site 2 [chemical binding]; other site 880071007243 putative substrate binding site 1 [chemical binding]; other site 880071007244 active site 880071007245 AAA domain; Region: AAA_21; pfam13304 880071007246 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 880071007247 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 880071007248 Mevalonate pyrophosphate decarboxylase [Lipid metabolism]; Region: MVD1; COG3407 880071007249 diphosphomevalonate decarboxylase; Region: PLN02407 880071007250 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 880071007251 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 880071007252 homodimer interface [polypeptide binding]; other site 880071007253 active site 880071007254 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 880071007255 Repeats in polycystic kidney disease 1 (PKD1) and other proteins; Region: PKD; smart00089 880071007256 FOG: PKD repeat [General function prediction only]; Region: COG3291 880071007257 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 880071007258 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 880071007259 catalytic center binding site [active] 880071007260 ATP binding site [chemical binding]; other site 880071007261 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 880071007262 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 880071007263 nucleoside/Zn binding site; other site 880071007264 dimer interface [polypeptide binding]; other site 880071007265 catalytic motif [active] 880071007266 RNA polymerase sigma factor; Provisional; Region: PRK12513 880071007267 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880071007268 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 880071007269 DNA binding residues [nucleotide binding] 880071007270 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 880071007271 DDE superfamily endonuclease; Region: DDE_4; cl17710 880071007272 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 880071007273 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 880071007274 TATA element modulatory factor 1 TATA binding; Region: TMF_TATA_bd; pfam12325 880071007275 UbiA prenyltransferase family; Region: UbiA; pfam01040 880071007276 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 880071007277 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 880071007278 antiporter inner membrane protein; Provisional; Region: PRK11670 880071007279 Domain of unknown function DUF59; Region: DUF59; pfam01883 880071007280 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 880071007281 Walker A motif; other site 880071007282 Methyltransferase domain; Region: Methyltransf_26; pfam13659 880071007283 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 880071007284 hydroxyglutarate oxidase; Provisional; Region: PRK11728 880071007285 Predicted dehydrogenase [General function prediction only]; Region: COG0579 880071007286 Predicted thiol-disulfide oxidoreductase [General function prediction only]; Region: COG3011 880071007287 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 880071007288 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 880071007289 RNA binding surface [nucleotide binding]; other site 880071007290 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 880071007291 active site 880071007292 Bacteroidetes-specific putative membrane protein; Region: Bac_Flav_fam_1; TIGR03519 880071007293 RNA:NAD 2'-phosphotransferase [Translation, ribosomal structure and biogenesis]; Region: KptA; COG1859 880071007294 RNA 2'-phosphotransferase, Tpt1 / KptA family; Region: PTS_2-RNA; pfam01885 880071007295 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 880071007296 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 880071007297 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 880071007298 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 880071007299 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 880071007300 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 880071007301 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 880071007302 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 880071007303 binding surface 880071007304 TPR motif; other site 880071007305 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 880071007306 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 880071007307 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 880071007308 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 880071007309 ligand binding site [chemical binding]; other site 880071007310 Acyltransferase family; Region: Acyl_transf_3; pfam01757 880071007311 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 880071007312 EamA-like transporter family; Region: EamA; pfam00892 880071007313 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 880071007314 EamA-like transporter family; Region: EamA; pfam00892 880071007315 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 880071007316 active site 880071007317 Outer membrane efflux protein; Region: OEP; pfam02321 880071007318 Outer membrane efflux protein; Region: OEP; pfam02321 880071007319 short chain dehydrogenase; Provisional; Region: PRK06180 880071007320 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 880071007321 NADP binding site [chemical binding]; other site 880071007322 active site 880071007323 steroid binding site; other site 880071007324 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 880071007325 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 880071007326 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 880071007327 multifunctional aminopeptidase A; Provisional; Region: PRK00913 880071007328 interface (dimer of trimers) [polypeptide binding]; other site 880071007329 Substrate-binding/catalytic site; other site 880071007330 Zn-binding sites [ion binding]; other site 880071007331 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 880071007332 Peptidase family M48; Region: Peptidase_M48; pfam01435 880071007333 Aminopeptidase P, N-terminal domain; Region: AMP_N; smart01011 880071007334 proline aminopeptidase P II; Provisional; Region: PRK10879 880071007335 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 880071007336 active site 880071007337 Protein of unknown function (DUF2480); Region: DUF2480; pfam10652 880071007338 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 880071007339 active site 880071007340 hydrophilic channel; other site 880071007341 dimerization interface [polypeptide binding]; other site 880071007342 catalytic residues [active] 880071007343 active site lid [active] 880071007344 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 880071007345 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 880071007346 Fatty acid desaturase; Region: FA_desaturase; pfam00487 880071007347 putative di-iron ligands [ion binding]; other site 880071007348 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 880071007349 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 880071007350 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880071007351 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 880071007352 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 880071007353 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880071007354 acetyl-CoA synthetase; Provisional; Region: PRK00174 880071007355 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 880071007356 active site 880071007357 CoA binding site [chemical binding]; other site 880071007358 acyl-activating enzyme (AAE) consensus motif; other site 880071007359 AMP binding site [chemical binding]; other site 880071007360 acetate binding site [chemical binding]; other site 880071007361 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 880071007362 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 880071007363 Homeodomain-like domain; Region: HTH_23; pfam13384 880071007364 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 880071007365 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 880071007366 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 880071007367 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 880071007368 Na binding site [ion binding]; other site 880071007369 Response regulator receiver domain; Region: Response_reg; pfam00072 880071007370 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 880071007371 active site 880071007372 phosphorylation site [posttranslational modification] 880071007373 intermolecular recognition site; other site 880071007374 dimerization interface [polypeptide binding]; other site 880071007375 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 880071007376 Na binding site [ion binding]; other site 880071007377 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880071007378 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 880071007379 dimer interface [polypeptide binding]; other site 880071007380 phosphorylation site [posttranslational modification] 880071007381 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 880071007382 ATP binding site [chemical binding]; other site 880071007383 Mg2+ binding site [ion binding]; other site 880071007384 G-X-G motif; other site 880071007385 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 880071007386 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 880071007387 conserved cys residue [active] 880071007388 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880071007389 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 880071007390 ATP binding site [chemical binding]; other site 880071007391 Mg2+ binding site [ion binding]; other site 880071007392 G-X-G motif; other site 880071007393 Transposase IS200 like; Region: Y1_Tnp; pfam01797 880071007394 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl17214 880071007395 CRISPR/Cas system-associated protein Cmr5; Region: Cmr5_III-B; cl01317 880071007396 CRISPR/Cas system-associated RAMP superfamily protein Cmr4; Region: Cmr4_III-B; cl17440 880071007397 CRISPR/Cas system-associated protein Csm6; Region: Csm6_III-A; cl01634 880071007398 CRISPR-associated protein (Cas_Cmr3); Region: Cas_Cmr3; pfam09700 880071007399 CRISPR/Cas system-associated RAMP superfamily protein Cmr3; Region: Cmr3_III-B; cl12075 880071007400 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cl13853 880071007401 CRISPR-associated protein Cas10/Cmr2, subtype III-B; Region: cas_TM1794_Cmr2; TIGR02577 880071007402 CRISPR/Cas system-associated RAMP superfamily protein Cmr1; Region: Cmr1_III-B; cl17436 880071007403 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 880071007404 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 880071007405 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 880071007406 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 880071007407 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 880071007408 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 880071007409 folate binding site [chemical binding]; other site 880071007410 NADP+ binding site [chemical binding]; other site 880071007411 MG2 domain; Region: A2M_N; pfam01835 880071007412 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 880071007413 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 880071007414 Alpha-2-macroglobulin family; Region: A2M; pfam00207 880071007415 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 880071007416 surface patch; other site 880071007417 thioester region; other site 880071007418 A-macroglobulin complement component; Region: A2M_comp; pfam07678 880071007419 specificity defining residues; other site 880071007420 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 880071007421 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 880071007422 Sporulation related domain; Region: SPOR; pfam05036 880071007423 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 880071007424 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 880071007425 HSP70 interaction site [polypeptide binding]; other site 880071007426 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 880071007427 binding surface 880071007428 TPR repeat; Region: TPR_11; pfam13414 880071007429 TPR motif; other site 880071007430 TPR repeat; Region: TPR_11; pfam13414 880071007431 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 880071007432 binding surface 880071007433 TPR repeat; Region: TPR_11; pfam13414 880071007434 TPR motif; other site 880071007435 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 880071007436 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 880071007437 trimer interface [polypeptide binding]; other site 880071007438 active site 880071007439 substrate binding site [chemical binding]; other site 880071007440 CoA binding site [chemical binding]; other site 880071007441 Protein of unknown function (DUF1516); Region: DUF1516; cl11654 880071007442 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 880071007443 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 880071007444 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 880071007445 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 880071007446 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 880071007447 Walker B motif; other site 880071007448 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 880071007449 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 880071007450 putative active site [active] 880071007451 catalytic residue [active] 880071007452 GSCFA family; Region: GSCFA; pfam08885 880071007453 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 880071007454 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 880071007455 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 880071007456 purine monophosphate binding site [chemical binding]; other site 880071007457 dimer interface [polypeptide binding]; other site 880071007458 putative catalytic residues [active] 880071007459 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 880071007460 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 880071007461 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 880071007462 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 880071007463 NADP binding site [chemical binding]; other site 880071007464 active site 880071007465 putative substrate binding site [chemical binding]; other site 880071007466 Uncharacterized conserved protein [Function unknown]; Region: COG3791 880071007467 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 880071007468 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 880071007469 3-hydroxy-3-methylglutaryl CoA synthase [Lipid metabolism]; Region: PksG; COG3425 880071007470 "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 880071007471 dimer interface [polypeptide binding]; other site 880071007472 active site 880071007473 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 880071007474 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 880071007475 homodimer interface [polypeptide binding]; other site 880071007476 substrate-cofactor binding pocket; other site 880071007477 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880071007478 catalytic residue [active] 880071007479 OsmC-like protein; Region: OsmC; pfam02566 880071007480 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 880071007481 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 880071007482 Active Sites [active] 880071007483 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 880071007484 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 880071007485 Active Sites [active] 880071007486 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 880071007487 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 880071007488 CysD dimerization site [polypeptide binding]; other site 880071007489 G1 box; other site 880071007490 putative GEF interaction site [polypeptide binding]; other site 880071007491 GTP/Mg2+ binding site [chemical binding]; other site 880071007492 Switch I region; other site 880071007493 G2 box; other site 880071007494 G3 box; other site 880071007495 Switch II region; other site 880071007496 G4 box; other site 880071007497 G5 box; other site 880071007498 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 880071007499 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 880071007500 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 880071007501 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 880071007502 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 880071007503 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 880071007504 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 880071007505 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 880071007506 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 880071007507 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 880071007508 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 880071007509 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 880071007510 HlyD family secretion protein; Region: HlyD_3; pfam13437 880071007511 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 880071007512 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 880071007513 enoyl-CoA hydratase; Provisional; Region: PRK05995 880071007514 substrate binding site [chemical binding]; other site 880071007515 oxyanion hole (OAH) forming residues; other site 880071007516 trimer interface [polypeptide binding]; other site 880071007517 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 880071007518 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 880071007519 Retinal pigment epithelial membrane protein; Region: RPE65; cl10080 880071007520 Retinal pigment epithelial membrane protein; Region: RPE65; cl10080 880071007521 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 880071007522 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 880071007523 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 880071007524 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880071007525 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880071007526 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880071007527 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880071007528 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880071007529 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880071007530 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880071007531 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880071007532 DNA topoisomerase IV subunit A; Provisional; Region: PRK12758 880071007533 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 880071007534 CAP-like domain; other site 880071007535 active site 880071007536 primary dimer interface [polypeptide binding]; other site 880071007537 Peptidase family M48; Region: Peptidase_M48; pfam01435 880071007538 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 880071007539 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 880071007540 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 880071007541 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 880071007542 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 880071007543 FeoA domain; Region: FeoA; pfam04023 880071007544 Transcriptional regulator [Transcription]; Region: LysR; COG0583 880071007545 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 880071007546 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 880071007547 dimerization interface [polypeptide binding]; other site 880071007548 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 880071007549 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 880071007550 dimer interface [polypeptide binding]; other site 880071007551 active site 880071007552 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 880071007553 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 880071007554 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 880071007555 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 880071007556 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 880071007557 substrate binding site [chemical binding]; other site 880071007558 oxyanion hole (OAH) forming residues; other site 880071007559 trimer interface [polypeptide binding]; other site 880071007560 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 880071007561 MarR family; Region: MarR; pfam01047 880071007562 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 880071007563 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; pfam02617 880071007564 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880071007565 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 880071007566 NAD(P) binding site [chemical binding]; other site 880071007567 active site 880071007568 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 880071007569 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 880071007570 putative ADP-binding pocket [chemical binding]; other site 880071007571 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 880071007572 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 880071007573 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 880071007574 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 880071007575 HlyD family secretion protein; Region: HlyD_3; pfam13437 880071007576 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 880071007577 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 880071007578 Helix-turn-helix domain; Region: HTH_18; pfam12833 880071007579 glycine dehydrogenase; Provisional; Region: PRK05367 880071007580 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 880071007581 tetramer interface [polypeptide binding]; other site 880071007582 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880071007583 catalytic residue [active] 880071007584 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 880071007585 tetramer interface [polypeptide binding]; other site 880071007586 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880071007587 catalytic residue [active] 880071007588 Transposase IS200 like; Region: Y1_Tnp; cl00848 880071007589 Acyltransferase family; Region: Acyl_transf_3; pfam01757 880071007590 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 880071007591 GAF domain; Region: GAF; pfam01590 880071007592 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 880071007593 PAS domain; Region: PAS_9; pfam13426 880071007594 putative active site [active] 880071007595 heme pocket [chemical binding]; other site 880071007596 PAS domain; Region: PAS_9; pfam13426 880071007597 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 880071007598 putative active site [active] 880071007599 heme pocket [chemical binding]; other site 880071007600 PAS fold; Region: PAS_3; pfam08447 880071007601 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 880071007602 putative active site [active] 880071007603 heme pocket [chemical binding]; other site 880071007604 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 880071007605 PAS fold; Region: PAS_3; pfam08447 880071007606 putative active site [active] 880071007607 heme pocket [chemical binding]; other site 880071007608 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 880071007609 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 880071007610 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 880071007611 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 880071007612 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 880071007613 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 880071007614 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 880071007615 active site 880071007616 nucleophile elbow; other site 880071007617 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 880071007618 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 880071007619 putative active site [active] 880071007620 putative NTP binding site [chemical binding]; other site 880071007621 putative nucleic acid binding site [nucleotide binding]; other site 880071007622 WGR domain; Region: WGR; cl01581 880071007623 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 880071007624 dimer interface [polypeptide binding]; other site 880071007625 catalytic triad [active] 880071007626 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 880071007627 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 880071007628 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 880071007629 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 880071007630 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 880071007631 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 880071007632 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 880071007633 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 880071007634 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 880071007635 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 880071007636 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 880071007637 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 880071007638 putative catalytic residues [active] 880071007639 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 880071007640 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 880071007641 substrate binding site [chemical binding]; other site 880071007642 glutamase interaction surface [polypeptide binding]; other site 880071007643 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 880071007644 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 880071007645 catalytic residues [active] 880071007646 GldH lipoprotein; Region: GldH_lipo; cl11905 880071007647 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 880071007648 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 880071007649 FMN binding site [chemical binding]; other site 880071007650 active site 880071007651 catalytic residues [active] 880071007652 substrate binding site [chemical binding]; other site 880071007653 Winged helix DNA-binding domain; Region: HTH_34; pfam13601 880071007654 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 880071007655 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 880071007656 S-adenosylmethionine binding site [chemical binding]; other site 880071007657 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 880071007658 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 880071007659 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 880071007660 substrate binding site [chemical binding]; other site 880071007661 oxyanion hole (OAH) forming residues; other site 880071007662 trimer interface [polypeptide binding]; other site 880071007663 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 880071007664 tetramerization interface [polypeptide binding]; other site 880071007665 active site 880071007666 pantoate--beta-alanine ligase; Region: panC; TIGR00018 880071007667 Pantoate-beta-alanine ligase; Region: PanC; cd00560 880071007668 active site 880071007669 ATP-binding site [chemical binding]; other site 880071007670 pantoate-binding site; other site 880071007671 HXXH motif; other site 880071007672 amino acid/peptide transporter (Peptide:H+ symporter), bacterial; Region: yjdL_sub1_fam; TIGR00924 880071007673 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 880071007674 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 880071007675 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA; cd03877 880071007676 Peptidase family M28; Region: Peptidase_M28; pfam04389 880071007677 metal binding site [ion binding]; metal-binding site 880071007678 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 880071007679 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 880071007680 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 880071007681 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880071007682 Walker A/P-loop; other site 880071007683 ATP binding site [chemical binding]; other site 880071007684 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 880071007685 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 880071007686 WbqC-like protein family; Region: WbqC; pfam08889 880071007687 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 880071007688 Methyltransferase domain; Region: Methyltransf_31; pfam13847 880071007689 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 880071007690 S-adenosylmethionine binding site [chemical binding]; other site 880071007691 Thiopurine S-methyltransferase (TPMT); Region: TPMT; pfam05724 880071007692 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 880071007693 S-adenosylmethionine binding site [chemical binding]; other site 880071007694 Sialic acid synthase [Cell envelope biogenesis, outer membrane]; Region: SpsE; COG2089 880071007695 NeuB family; Region: NeuB; pfam03102 880071007696 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 880071007697 NeuB binding interface [polypeptide binding]; other site 880071007698 putative substrate binding site [chemical binding]; other site 880071007699 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 880071007700 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 880071007701 ligand binding site; other site 880071007702 tetramer interface; other site 880071007703 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880071007704 NAD(P) binding site [chemical binding]; other site 880071007705 active site 880071007706 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 880071007707 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 880071007708 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 880071007709 active site 880071007710 catalytic tetrad [active] 880071007711 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 880071007712 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 880071007713 inhibitor-cofactor binding pocket; inhibition site 880071007714 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880071007715 catalytic residue [active] 880071007716 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 880071007717 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 880071007718 NAD(P) binding site [chemical binding]; other site 880071007719 homodimer interface [polypeptide binding]; other site 880071007720 substrate binding site [chemical binding]; other site 880071007721 active site 880071007722 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 880071007723 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 880071007724 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 880071007725 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 880071007726 catalytic site [active] 880071007727 G-X2-G-X-G-K; other site 880071007728 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 880071007729 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 880071007730 active site 880071007731 (T/H)XGH motif; other site 880071007732 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880071007733 von Willebrand factor; Region: vWF_A; pfam12450 880071007734 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 880071007735 VWA subgroup: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_subgroup; cd01465 880071007736 metal ion-dependent adhesion site (MIDAS); other site 880071007737 Domain of unknown function (DUF3520); Region: DUF3520; pfam12034 880071007738 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 880071007739 AMP binding site [chemical binding]; other site 880071007740 metal binding site [ion binding]; metal-binding site 880071007741 active site 880071007742 Delta(1)-pyrroline-5-carboxylate dehydrogenase, ALDH families 4 and 17; Region: ALDH_F4-17_P5CDH; cd07123 880071007743 delta-1-pyrroline-5-carboxylate dehydrogenase, group 1; Region: D1pyr5carbox1; TIGR01236 880071007744 Glutamate binding site [chemical binding]; other site 880071007745 NAD binding site [chemical binding]; other site 880071007746 catalytic residues [active] 880071007747 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 880071007748 TPR motif; other site 880071007749 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880071007750 binding surface 880071007751 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880071007752 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 880071007753 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 880071007754 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880071007755 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880071007756 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880071007757 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880071007758 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880071007759 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 880071007760 Periplasmic copper-binding protein (NosD); Region: NosD; pfam05048 880071007761 HYR domain; Region: HYR; pfam02494 880071007762 Immunoglobulin domain; Region: Ig_2; pfam13895 880071007763 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 880071007764 Leucine-rich repeats; other site 880071007765 Substrate binding site [chemical binding]; other site 880071007766 Leucine rich repeat; Region: LRR_8; pfam13855 880071007767 Leucine rich repeat; Region: LRR_8; pfam13855 880071007768 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880071007769 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 880071007770 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 880071007771 active site 880071007772 catalytic tetrad [active] 880071007773 Mg-chelatase subunit ChlI [Coenzyme metabolism]; Region: ChlI; COG1239 880071007774 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 880071007775 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 880071007776 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 880071007777 dimerization interface [polypeptide binding]; other site 880071007778 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880071007779 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 880071007780 active site 880071007781 YceG-like family; Region: YceG; pfam02618 880071007782 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 880071007783 dimerization interface [polypeptide binding]; other site 880071007784 YcxB-like protein; Region: YcxB; pfam14317 880071007785 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 880071007786 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880071007787 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 880071007788 DNA binding residues [nucleotide binding] 880071007789 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 880071007790 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl17581 880071007791 putative proton transfer pathway, P2; other site 880071007792 Membrane transport protein; Region: Mem_trans; cl09117 880071007793 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 880071007794 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 880071007795 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 880071007796 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 880071007797 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 880071007798 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 880071007799 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 880071007800 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 880071007801 classical (c) SDRs; Region: SDR_c; cd05233 880071007802 NAD(P) binding site [chemical binding]; other site 880071007803 active site 880071007804 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 880071007805 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 880071007806 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 880071007807 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 880071007808 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 880071007809 binding surface 880071007810 TPR motif; other site 880071007811 TPR repeat; Region: TPR_11; pfam13414 880071007812 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 880071007813 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 880071007814 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 880071007815 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 880071007816 DNA repair protein RadA; Provisional; Region: PRK11823 880071007817 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 880071007818 Walker A motif/ATP binding site; other site 880071007819 ATP binding site [chemical binding]; other site 880071007820 Walker B motif; other site 880071007821 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 880071007822 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 880071007823 Two component regulator propeller; Region: Reg_prop; pfam07494 880071007824 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 880071007825 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880071007826 Sec-independent protein translocase protein (TatC); Region: TatC; pfam00902 880071007827 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 880071007828 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 880071007829 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 880071007830 DEAD-like helicases superfamily; Region: DEXDc; smart00487 880071007831 ATP binding site [chemical binding]; other site 880071007832 Mg++ binding site [ion binding]; other site 880071007833 motif III; other site 880071007834 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 880071007835 nucleotide binding region [chemical binding]; other site 880071007836 ATP-binding site [chemical binding]; other site 880071007837 Response regulator receiver domain; Region: Response_reg; pfam00072 880071007838 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 880071007839 active site 880071007840 phosphorylation site [posttranslational modification] 880071007841 intermolecular recognition site; other site 880071007842 dimerization interface [polypeptide binding]; other site 880071007843 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 880071007844 dimer interface [polypeptide binding]; other site 880071007845 phosphorylation site [posttranslational modification] 880071007846 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 880071007847 ATP binding site [chemical binding]; other site 880071007848 Mg2+ binding site [ion binding]; other site 880071007849 G-X-G motif; other site 880071007850 Response regulator receiver domain; Region: Response_reg; pfam00072 880071007851 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 880071007852 active site 880071007853 phosphorylation site [posttranslational modification] 880071007854 intermolecular recognition site; other site 880071007855 dimerization interface [polypeptide binding]; other site 880071007856 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 880071007857 an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; Region: DNA_pol_III_epsilon_like; cd06130 880071007858 active site 880071007859 catalytic site [active] 880071007860 substrate binding site [chemical binding]; other site 880071007861 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 880071007862 beta-carotene hydroxylase; Region: PLN02601 880071007863 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 880071007864 Secretin and TonB N terminus short domain; Region: STN; pfam07660 880071007865 FecR protein; Region: FecR; pfam04773 880071007866 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 880071007867 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 880071007868 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 880071007869 active site 880071007870 catalytic site [active] 880071007871 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 880071007872 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 880071007873 intersubunit interface [polypeptide binding]; other site 880071007874 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 880071007875 Methyltransferase domain; Region: Methyltransf_26; pfam13659 880071007876 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 880071007877 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 880071007878 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 880071007879 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 880071007880 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 880071007881 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 880071007882 UDP-N-acetylmuramate-alanine ligase [Cell envelope biogenesis, outer membrane]; Region: MurC; COG0773 880071007883 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 880071007884 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 880071007885 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 880071007886 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07666 880071007887 classical (c) SDRs; Region: SDR_c; cd05233 880071007888 NAD(P) binding site [chemical binding]; other site 880071007889 active site 880071007890 Beta-lactamase; Region: Beta-lactamase; cl17358 880071007891 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 880071007892 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 880071007893 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 880071007894 4Fe-4S binding domain; Region: Fer4; cl02805 880071007895 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 880071007896 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 880071007897 hinge; other site 880071007898 active site 880071007899 GDP-fucose protein O-fucosyltransferase and related proteins; Region: O-FucT_like; cl16914 880071007900 GDP-Fucose binding site [chemical binding]; other site 880071007901 pyruvate carboxylase; Reviewed; Region: PRK12999 880071007902 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 880071007903 ATP-grasp domain; Region: ATP-grasp_4; cl17255 880071007904 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 880071007905 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 880071007906 active site 880071007907 catalytic residues [active] 880071007908 metal binding site [ion binding]; metal-binding site 880071007909 homodimer binding site [polypeptide binding]; other site 880071007910 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 880071007911 carboxyltransferase (CT) interaction site; other site 880071007912 biotinylation site [posttranslational modification]; other site 880071007913 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 880071007914 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 880071007915 DNA methylase; Region: N6_N4_Mtase; pfam01555 880071007916 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880071007917 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 880071007918 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 880071007919 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 880071007920 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 880071007921 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 880071007922 Walker A/P-loop; other site 880071007923 ATP binding site [chemical binding]; other site 880071007924 Q-loop/lid; other site 880071007925 ABC transporter signature motif; other site 880071007926 Walker B; other site 880071007927 D-loop; other site 880071007928 H-loop/switch region; other site 880071007929 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 880071007930 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 880071007931 EamA-like transporter family; Region: EamA; pfam00892 880071007932 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 880071007933 EamA-like transporter family; Region: EamA; pfam00892 880071007934 Transposase; Region: DEDD_Tnp_IS110; pfam01548 880071007935 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 880071007936 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 880071007937 T-complex protein 10 C-terminus; Region: Tcp10_C; pfam07202 880071007938 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 880071007939 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880071007940 Walker A/P-loop; other site 880071007941 ATP binding site [chemical binding]; other site 880071007942 Q-loop/lid; other site 880071007943 ABC transporter signature motif; other site 880071007944 Walker B; other site 880071007945 D-loop; other site 880071007946 H-loop/switch region; other site 880071007947 ABC transporter; Region: ABC_tran_2; pfam12848 880071007948 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 880071007949 Predicted nucleotidyltransferase; Region: Nuc-transf; pfam10127 880071007950 geranylgeranylglyceryl phosphate synthase-like protein; Reviewed; Region: PRK04169 880071007951 PcrB family; Region: PcrB; pfam01884 880071007952 phosphate binding site [ion binding]; other site 880071007953 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 880071007954 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 880071007955 domain interfaces; other site 880071007956 active site 880071007957 Predicted transcriptional regulators [Transcription]; Region: COG1733 880071007958 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 880071007959 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 880071007960 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 880071007961 active site 880071007962 metal binding site [ion binding]; metal-binding site 880071007963 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 880071007964 pentamer interface [polypeptide binding]; other site 880071007965 dodecaamer interface [polypeptide binding]; other site 880071007966 YvbH-like oligomerisation region; Region: YvbH_ext; pfam11724 880071007967 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 880071007968 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 880071007969 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 880071007970 Predicted helicase [General function prediction only]; Region: COG4889 880071007971 Predicted helicase [General function prediction only]; Region: COG4889 880071007972 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 880071007973 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 880071007974 active site 880071007975 dimerization interface [polypeptide binding]; other site 880071007976 Protein of unknown function (DUF423); Region: DUF423; pfam04241 880071007977 DNA-damage-inducible protein D; Provisional; Region: dinD; PRK11525 880071007978 BRO family, N-terminal domain; Region: Bro-N; cl10591 880071007979 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880071007980 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 880071007981 TPR motif; other site 880071007982 binding surface 880071007983 Tetratricopeptide repeat; Region: TPR_12; pfam13424 880071007984 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880071007985 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 880071007986 histidinol dehydrogenase; Region: hisD; TIGR00069 880071007987 NAD binding site [chemical binding]; other site 880071007988 dimerization interface [polypeptide binding]; other site 880071007989 product binding site; other site 880071007990 substrate binding site [chemical binding]; other site 880071007991 zinc binding site [ion binding]; other site 880071007992 catalytic residues [active] 880071007993 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 880071007994 Protein of unknown function, DUF481; Region: DUF481; cl01213 880071007995 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Sulfolobus solfataricus (Ss) and its homologs from archaea and bacteria; Region: NTP-PPase_SsMazG; cd11535 880071007996 metal binding site [ion binding]; metal-binding site 880071007997 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 880071007998 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 880071007999 Walker A/P-loop; other site 880071008000 ATP binding site [chemical binding]; other site 880071008001 Q-loop/lid; other site 880071008002 ABC transporter signature motif; other site 880071008003 Walker B; other site 880071008004 D-loop; other site 880071008005 H-loop/switch region; other site 880071008006 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 880071008007 putative active site [active] 880071008008 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 880071008009 AAA domain; Region: AAA_11; pfam13086 880071008010 Part of AAA domain; Region: AAA_19; pfam13245 880071008011 AAA domain; Region: AAA_11; pfam13086 880071008012 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 880071008013 AAA domain; Region: AAA_12; pfam13087 880071008014 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880071008015 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 880071008016 Interdomain contacts; other site 880071008017 Cytokine receptor motif; other site 880071008018 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880071008019 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 880071008020 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 880071008021 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 880071008022 protein binding site [polypeptide binding]; other site 880071008023 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 880071008024 Catalytic dyad [active] 880071008025 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 880071008026 Predicted amidohydrolase [General function prediction only]; Region: COG0388 880071008027 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 880071008028 putative active site [active] 880071008029 catalytic triad [active] 880071008030 putative dimer interface [polypeptide binding]; other site 880071008031 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880071008032 Walker A/P-loop; other site 880071008033 ATP binding site [chemical binding]; other site 880071008034 Q-loop/lid; other site 880071008035 ABC transporter signature motif; other site 880071008036 Walker B; other site 880071008037 D-loop; other site 880071008038 H-loop/switch region; other site 880071008039 Protein of unknown function (DUF3352); Region: DUF3352; pfam11832 880071008040 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 880071008041 Yqey-like protein; Region: YqeY; pfam09424 880071008042 K-Cl cotransporter; Region: 2a30; TIGR00930 880071008043 ribonuclease P; Reviewed; Region: rnpA; PRK01903 880071008044 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 880071008045 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 880071008046 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 880071008047 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 880071008048 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 880071008049 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 880071008050 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 880071008051 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 880071008052 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 880071008053 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 880071008054 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 880071008055 Interdomain contacts; other site 880071008056 Cytokine receptor motif; other site 880071008057 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880071008058 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 880071008059 DNA polymerase III, delta subunit; Region: holA; TIGR01128 880071008060 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 880071008061 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 880071008062 NADP binding site [chemical binding]; other site 880071008063 active site 880071008064 putative substrate binding site [chemical binding]; other site 880071008065 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 880071008066 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 880071008067 NADP-binding site; other site 880071008068 homotetramer interface [polypeptide binding]; other site 880071008069 substrate binding site [chemical binding]; other site 880071008070 homodimer interface [polypeptide binding]; other site 880071008071 active site 880071008072 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 880071008073 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 880071008074 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 880071008075 catalytic residues [active] 880071008076 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 880071008077 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 880071008078 TPP-binding site [chemical binding]; other site 880071008079 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 880071008080 PYR/PP interface [polypeptide binding]; other site 880071008081 dimer interface [polypeptide binding]; other site 880071008082 TPP binding site [chemical binding]; other site 880071008083 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 880071008084 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 880071008085 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 880071008086 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 880071008087 active site 880071008088 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 880071008089 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 880071008090 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 880071008091 Protein of unknown function (DUF3575); Region: DUF3575; pfam12099 880071008092 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 880071008093 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 880071008094 Protein of unknown function (DUF502); Region: DUF502; cl01107 880071008095 adenylosuccinate lyase; Provisional; Region: PRK09285 880071008096 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 880071008097 tetramer interface [polypeptide binding]; other site 880071008098 active site 880071008099 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 880071008100 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 880071008101 HSP70 interaction site [polypeptide binding]; other site 880071008102 TPR repeat; Region: TPR_11; pfam13414 880071008103 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 880071008104 binding surface 880071008105 TPR motif; other site 880071008106 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 880071008107 binding surface 880071008108 TPR motif; other site 880071008109 bacillithiol system protein YtxJ; Region: B_thiol_YtxJ; TIGR04019 880071008110 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 880071008111 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 880071008112 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 880071008113 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 880071008114 NAD(P) binding site [chemical binding]; other site 880071008115 homotetramer interface [polypeptide binding]; other site 880071008116 homodimer interface [polypeptide binding]; other site 880071008117 active site 880071008118 Domain of unknown function DUF302; Region: DUF302; pfam03625 880071008119 Domain of unknown function DUF302; Region: DUF302; pfam03625 880071008120 Ribosome-binding factor A; Region: RBFA; pfam02033 880071008121 Smr domain; Region: Smr; pfam01713 880071008122 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 880071008123 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 880071008124 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 880071008125 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 880071008126 PspC domain; Region: PspC; pfam04024 880071008127 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 880071008128 active site 880071008129 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 880071008130 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 880071008131 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 880071008132 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 880071008133 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 880071008134 metal binding site [ion binding]; metal-binding site 880071008135 hypothetical protein; Provisional; Region: PRK04164 880071008136 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 880071008137 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 880071008138 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 880071008139 active site 880071008140 Zn binding site [ion binding]; other site 880071008141 CAAX protease self-immunity; Region: Abi; pfam02517 880071008142 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 880071008143 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 880071008144 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 880071008145 GTP-binding protein YchF; Reviewed; Region: PRK09601 880071008146 YchF GTPase; Region: YchF; cd01900 880071008147 G1 box; other site 880071008148 GTP/Mg2+ binding site [chemical binding]; other site 880071008149 Switch I region; other site 880071008150 G2 box; other site 880071008151 Switch II region; other site 880071008152 G3 box; other site 880071008153 G4 box; other site 880071008154 G5 box; other site 880071008155 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 880071008156 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 880071008157 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 880071008158 NodB motif; other site 880071008159 active site 880071008160 catalytic site [active] 880071008161 metal binding site [ion binding]; metal-binding site 880071008162 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 880071008163 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880071008164 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 880071008165 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 880071008166 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 880071008167 Uncharacterized subfamily of the Thermotoga maritima CorA-like family; Region: TmCorA-like_u3; cd12832 880071008168 oligomer interface [polypeptide binding]; other site 880071008169 metal binding site [ion binding]; metal-binding site 880071008170 putative Cl binding site [ion binding]; other site 880071008171 basic sphincter; other site 880071008172 hydrophobic gate; other site 880071008173 periplasmic entrance; other site 880071008174 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 880071008175 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 880071008176 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 880071008177 ligand binding site [chemical binding]; other site 880071008178 Protein of unknown function (DUF2851); Region: DUF2851; pfam11013 880071008179 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 880071008180 Major Facilitator Superfamily; Region: MFS_1; pfam07690 880071008181 putative substrate translocation pore; other site 880071008182 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 880071008183 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 880071008184 Protein phosphatase 2C; Region: PP2C; pfam00481 880071008185 active site 880071008186 AAA ATPase domain; Region: AAA_16; pfam13191 880071008187 AAA domain; Region: AAA_25; pfam13481 880071008188 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 880071008189 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 880071008190 catalytic residues [active] 880071008191 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 880071008192 putative FMN binding site [chemical binding]; other site 880071008193 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 880071008194 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880071008195 Walker A/P-loop; other site 880071008196 ATP binding site [chemical binding]; other site 880071008197 Q-loop/lid; other site 880071008198 ABC transporter signature motif; other site 880071008199 Walker B; other site 880071008200 D-loop; other site 880071008201 H-loop/switch region; other site 880071008202 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 880071008203 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 880071008204 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 880071008205 S-adenosylmethionine binding site [chemical binding]; other site 880071008206 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 880071008207 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 880071008208 catalytic residue [active] 880071008209 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 880071008210 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 880071008211 active site 880071008212 NTP binding site [chemical binding]; other site 880071008213 metal binding triad [ion binding]; metal-binding site 880071008214 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 880071008215 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 880071008216 Zn2+ binding site [ion binding]; other site 880071008217 Mg2+ binding site [ion binding]; other site 880071008218 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 880071008219 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 880071008220 Conserved TM helix; Region: TM_helix; pfam05552 880071008221 Mechanosensitive ion channel; Region: MS_channel; pfam00924 880071008222 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 880071008223 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 880071008224 catalytic residues [active] 880071008225 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 880071008226 FtsX-like permease family; Region: FtsX; pfam02687 880071008227 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 880071008228 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 880071008229 nucleotide binding pocket [chemical binding]; other site 880071008230 K-X-D-G motif; other site 880071008231 catalytic site [active] 880071008232 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 880071008233 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 880071008234 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 880071008235 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 880071008236 homodimer interface [polypeptide binding]; other site 880071008237 catalytic residues [active] 880071008238 NAD binding site [chemical binding]; other site 880071008239 substrate binding pocket [chemical binding]; other site 880071008240 flexible flap; other site 880071008241 Fatty acid desaturase; Region: FA_desaturase; pfam00487 880071008242 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 880071008243 putative di-iron ligands [ion binding]; other site 880071008244 Ion channel; Region: Ion_trans_2; pfam07885 880071008245 peptidase T; Region: peptidase-T; TIGR01882 880071008246 Recombination protein O N terminal; Region: RecO_N; pfam11967 880071008247 Recombination protein O C terminal; Region: RecO_C; pfam02565 880071008248 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 880071008249 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 880071008250 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 880071008251 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880071008252 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 880071008253 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 880071008254 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 880071008255 Tetramer interface [polypeptide binding]; other site 880071008256 active site 880071008257 FMN-binding site [chemical binding]; other site 880071008258 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 880071008259 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 880071008260 tetramer interface [polypeptide binding]; other site 880071008261 TPP-binding site [chemical binding]; other site 880071008262 heterodimer interface [polypeptide binding]; other site 880071008263 phosphorylation loop region [posttranslational modification] 880071008264 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 880071008265 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 880071008266 alpha subunit interface [polypeptide binding]; other site 880071008267 TPP binding site [chemical binding]; other site 880071008268 heterodimer interface [polypeptide binding]; other site 880071008269 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 880071008270 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 880071008271 putative catalytic site [active] 880071008272 putative metal binding site [ion binding]; other site 880071008273 putative phosphate binding site [ion binding]; other site 880071008274 hypothetical protein; Provisional; Region: PRK08201 880071008275 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 880071008276 metal binding site [ion binding]; metal-binding site 880071008277 putative dimer interface [polypeptide binding]; other site 880071008278 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 880071008279 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 880071008280 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 880071008281 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 880071008282 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 880071008283 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 880071008284 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 880071008285 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 880071008286 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 880071008287 Ligand Binding Site [chemical binding]; other site 880071008288 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 880071008289 Ligand Binding Site [chemical binding]; other site 880071008290 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 880071008291 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 880071008292 active site 880071008293 nucleophile elbow; other site 880071008294 Glyoxalase-like domain; Region: Glyoxalase_2; pfam12681 880071008295 active site 880071008296 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 880071008297 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 880071008298 DNA polymerase I; Region: pola; TIGR00593 880071008299 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 880071008300 active site 880071008301 metal binding site 1 [ion binding]; metal-binding site 880071008302 putative 5' ssDNA interaction site; other site 880071008303 metal binding site 3; metal-binding site 880071008304 metal binding site 2 [ion binding]; metal-binding site 880071008305 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 880071008306 putative DNA binding site [nucleotide binding]; other site 880071008307 putative metal binding site [ion binding]; other site 880071008308 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 880071008309 active site 880071008310 catalytic site [active] 880071008311 substrate binding site [chemical binding]; other site 880071008312 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 880071008313 active site 880071008314 DNA binding site [nucleotide binding] 880071008315 catalytic site [active] 880071008316 gliding-associated putative ABC transporter substrate-binding component GldG; Region: GldG; TIGR03521 880071008317 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 880071008318 metal-binding site 880071008319 N-terminal putative catalytic domain of uncharacterized HKD family nucleases fused to putative helicases from the Snf2-like family; Region: PLDc_N_Snf2_like; cd09178 880071008320 PLD-like domain; Region: PLDc_2; pfam13091 880071008321 putative homodimer interface [polypeptide binding]; other site 880071008322 putative active site [active] 880071008323 catalytic site [active] 880071008324 AAA domain; Region: AAA_22; pfam13401 880071008325 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 880071008326 ATP binding site [chemical binding]; other site 880071008327 putative Mg++ binding site [ion binding]; other site 880071008328 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 880071008329 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 880071008330 nucleotide binding region [chemical binding]; other site 880071008331 ATP-binding site [chemical binding]; other site 880071008332 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880071008333 Walker A/P-loop; other site 880071008334 ATP binding site [chemical binding]; other site 880071008335 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880071008336 ABC transporter signature motif; other site 880071008337 Walker B; other site 880071008338 D-loop; other site 880071008339 H-loop/switch region; other site 880071008340 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 880071008341 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 880071008342 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 880071008343 active site residue [active] 880071008344 YARHG domain; Region: YARHG; pfam13308 880071008345 Protein of unknown function (DUF3160); Region: DUF3160; pfam11369 880071008346 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 880071008347 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 880071008348 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 880071008349 active site 880071008350 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 880071008351 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 880071008352 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 880071008353 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 880071008354 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 880071008355 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 880071008356 Zn binding site [ion binding]; other site 880071008357 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 880071008358 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 880071008359 Walker A/P-loop; other site 880071008360 ATP binding site [chemical binding]; other site 880071008361 Q-loop/lid; other site 880071008362 ABC transporter signature motif; other site 880071008363 Walker B; other site 880071008364 D-loop; other site 880071008365 H-loop/switch region; other site 880071008366 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 880071008367 NlpC/P60 family; Region: NLPC_P60; pfam00877 880071008368 Integrase core domain; Region: rve; pfam00665 880071008369 DDE domain; Region: DDE_Tnp_IS240; pfam13610 880071008370 Integrase core domain; Region: rve_3; pfam13683 880071008371 purine nucleoside phosphorylase; Provisional; Region: PRK08202 880071008372 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 880071008373 catalytic residues [active] 880071008374 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 880071008375 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 880071008376 homopentamer interface [polypeptide binding]; other site 880071008377 active site 880071008378 Domain of unknown function (DUF4292); Region: DUF4292; pfam14125 880071008379 seryl-tRNA synthetase; Provisional; Region: PRK05431 880071008380 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 880071008381 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 880071008382 motif 1; other site 880071008383 dimer interface [polypeptide binding]; other site 880071008384 active site 880071008385 motif 2; other site 880071008386 motif 3; other site 880071008387 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 880071008388 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 880071008389 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 880071008390 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 880071008391 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 880071008392 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880071008393 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 880071008394 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 880071008395 N-terminal plug; other site 880071008396 ligand-binding site [chemical binding]; other site 880071008397 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 880071008398 Aerotolerance regulator N-terminal; Region: BatA; pfam07584 880071008399 CARDB; Region: CARDB; pfam07705 880071008400 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 880071008401 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 880071008402 FtsX-like permease family; Region: FtsX; pfam02687 880071008403 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 880071008404 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 880071008405 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 880071008406 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 880071008407 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 880071008408 N-terminal plug; other site 880071008409 ligand-binding site [chemical binding]; other site 880071008410 Surface antigen; Region: Bac_surface_Ag; pfam01103 880071008411 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 880071008412 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 880071008413 FtsX-like permease family; Region: FtsX; pfam02687 880071008414 GTPase CgtA; Reviewed; Region: obgE; PRK12299 880071008415 GTP1/OBG; Region: GTP1_OBG; pfam01018 880071008416 Obg GTPase; Region: Obg; cd01898 880071008417 G1 box; other site 880071008418 GTP/Mg2+ binding site [chemical binding]; other site 880071008419 Switch I region; other site 880071008420 G2 box; other site 880071008421 G3 box; other site 880071008422 Switch II region; other site 880071008423 G4 box; other site 880071008424 G5 box; other site 880071008425 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 880071008426 Ligand binding site [chemical binding]; other site 880071008427 Electron transfer flavoprotein domain; Region: ETF; pfam01012 880071008428 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 880071008429 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 880071008430 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 880071008431 Uncharacterized conserved protein [Function unknown]; Region: COG3391 880071008432 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 880071008433 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 880071008434 active site 880071008435 HIGH motif; other site 880071008436 nucleotide binding site [chemical binding]; other site 880071008437 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 880071008438 KMSK motif region; other site 880071008439 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 880071008440 tRNA binding surface [nucleotide binding]; other site 880071008441 anticodon binding site; other site 880071008442 DinB superfamily; Region: DinB_2; pfam12867 880071008443 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 880071008444 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 880071008445 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 880071008446 dimerization interface [polypeptide binding]; other site 880071008447 active site 880071008448 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 880071008449 TrkA-N domain; Region: TrkA_N; pfam02254 880071008450 TrkA-C domain; Region: TrkA_C; pfam02080 880071008451 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 880071008452 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 880071008453 ATP-binding site [chemical binding]; other site 880071008454 Sugar specificity; other site 880071008455 Pyrimidine base specificity; other site 880071008456 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 880071008457 Sulfatase; Region: Sulfatase; pfam00884 880071008458 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 880071008459 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 880071008460 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 880071008461 GAF domain; Region: GAF_2; pfam13185 880071008462 GAF domain; Region: GAF; pfam01590 880071008463 PAS domain S-box; Region: sensory_box; TIGR00229 880071008464 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 880071008465 putative active site [active] 880071008466 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 880071008467 Amidase; Region: Amidase; pfam01425 880071008468 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 880071008469 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14971 880071008470 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14970 880071008471 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 880071008472 Walker A motif; other site 880071008473 ATP binding site [chemical binding]; other site 880071008474 Walker B motif; other site 880071008475 arginine finger; other site 880071008476 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 880071008477 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 880071008478 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 880071008479 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 880071008480 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 880071008481 S-adenosylmethionine synthetase; Validated; Region: PRK05250 880071008482 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 880071008483 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 880071008484 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 880071008485 Vitamin K-dependent gamma-carboxylase; Region: VKG_Carbox; cl02773 880071008486 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13181 880071008487 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 880071008488 putative active site [active] 880071008489 oxyanion strand; other site 880071008490 catalytic triad [active] 880071008491 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 880071008492 Found in ATP-dependent protease La (LON); Region: LON; smart00464 880071008493 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 880071008494 Walker A motif; other site 880071008495 ATP binding site [chemical binding]; other site 880071008496 Walker B motif; other site 880071008497 arginine finger; other site 880071008498 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 880071008499 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 880071008500 MraW methylase family; Region: Methyltransf_5; cl17771 880071008501 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 880071008502 Ligand Binding Site [chemical binding]; other site 880071008503 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 880071008504 Ligand Binding Site [chemical binding]; other site 880071008505 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 880071008506 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 880071008507 putative hydrolase; Provisional; Region: PRK02113 880071008508 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 880071008509 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 880071008510 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 880071008511 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 880071008512 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 880071008513 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 880071008514 YhhN-like protein; Region: YhhN; cl01505 880071008515 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 880071008516 active site 880071008517 catalytic residues [active] 880071008518 GMP synthase; Reviewed; Region: guaA; PRK00074 880071008519 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 880071008520 AMP/PPi binding site [chemical binding]; other site 880071008521 candidate oxyanion hole; other site 880071008522 catalytic triad [active] 880071008523 potential glutamine specificity residues [chemical binding]; other site 880071008524 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 880071008525 ATP Binding subdomain [chemical binding]; other site 880071008526 Ligand Binding sites [chemical binding]; other site 880071008527 Dimerization subdomain; other site 880071008528 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 880071008529 generic binding surface II; other site 880071008530 generic binding surface I; other site 880071008531 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 880071008532 putative catalytic site [active] 880071008533 putative metal binding site [ion binding]; other site 880071008534 putative phosphate binding site [ion binding]; other site 880071008535 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 880071008536 Interdomain contacts; other site 880071008537 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 880071008538 Interdomain contacts; other site 880071008539 Cytokine receptor motif; other site 880071008540 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880071008541 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 880071008542 S-adenosylmethionine binding site [chemical binding]; other site 880071008543 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 880071008544 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 880071008545 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880071008546 Walker A/P-loop; other site 880071008547 ATP binding site [chemical binding]; other site 880071008548 Q-loop/lid; other site 880071008549 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 880071008550 ABC transporter signature motif; other site 880071008551 Walker B; other site 880071008552 D-loop; other site 880071008553 ABC transporter; Region: ABC_tran_2; pfam12848 880071008554 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 880071008555 NADH dehydrogenase subunit D; Validated; Region: PRK06075 880071008556 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 880071008557 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 880071008558 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 880071008559 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880071008560 homodimer interface [polypeptide binding]; other site 880071008561 catalytic residue [active] 880071008562 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 880071008563 RNA/DNA hybrid binding site [nucleotide binding]; other site 880071008564 active site 880071008565 hypothetical protein; Validated; Region: PRK00153 880071008566 nicotinamide-nucleotide adenylyltransferase, NadR type; Region: nadR_NMN_Atrans; TIGR01526 880071008567 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 880071008568 active site 880071008569 nucleotide binding site [chemical binding]; other site 880071008570 HIGH motif; other site 880071008571 KMSKS motif; other site 880071008572 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 880071008573 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 880071008574 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 880071008575 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 880071008576 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 880071008577 Peptidase S46; Region: Peptidase_S46; pfam10459 880071008578 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 880071008579 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 880071008580 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 880071008581 putative acyl-acceptor binding pocket; other site 880071008582 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 880071008583 phosphate binding site [ion binding]; other site 880071008584 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GpsA; COG0240 880071008585 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 880071008586 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 880071008587 Protein of unknown function (DUF2911); Region: DUF2911; pfam11138 880071008588 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 880071008589 TPR motif; other site 880071008590 binding surface 880071008591 PAS domain; Region: PAS_9; pfam13426 880071008592 dihydroorotase; Validated; Region: pyrC; PRK09357 880071008593 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 880071008594 active site 880071008595 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 880071008596 metal-dependent hydrolase; Provisional; Region: PRK13291 880071008597 DinB superfamily; Region: DinB_2; pfam12867 880071008598 Ubiquitin-conjugating enzyme E2, catalytic (UBCc) domain. This is part of the ubiquitin-mediated protein degradation pathway in which a thiol-ester linkage forms between a conserved cysteine and the C-terminus of ubiquitin and complexes with ubiquitin...; Region: UBCc; cl00154 880071008599 E3 interaction residues; other site 880071008600 Ub thioester intermediate interaction residues; other site 880071008601 active site cysteine 880071008602 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 880071008603 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 880071008604 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 880071008605 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880071008606 Walker A/P-loop; other site 880071008607 ATP binding site [chemical binding]; other site 880071008608 Q-loop/lid; other site 880071008609 ABC transporter signature motif; other site 880071008610 Walker B; other site 880071008611 D-loop; other site 880071008612 H-loop/switch region; other site 880071008613 4Fe-4S binding domain; Region: Fer4; pfam00037 880071008614 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 880071008615 4Fe-4S binding domain; Region: Fer4; cl02805 880071008616 Immunoglobulin domain; Region: Ig; cd00096 880071008617 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 880071008618 Leucine-rich repeats; other site 880071008619 Substrate binding site [chemical binding]; other site 880071008620 Leucine rich repeat; Region: LRR_8; pfam13855 880071008621 Leucine rich repeat; Region: LRR_8; pfam13855 880071008622 Immunoglobulin domain; Region: Ig; cl11960 880071008623 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880071008624 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 880071008625 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 880071008626 hexamer interface [polypeptide binding]; other site 880071008627 ligand binding site [chemical binding]; other site 880071008628 putative active site [active] 880071008629 NAD(P) binding site [chemical binding]; other site 880071008630 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 880071008631 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 880071008632 chaperone protein DnaJ; Provisional; Region: PRK14299 880071008633 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 880071008634 HSP70 interaction site [polypeptide binding]; other site 880071008635 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 880071008636 substrate binding site [polypeptide binding]; other site 880071008637 dimer interface [polypeptide binding]; other site 880071008638 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 880071008639 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 880071008640 putative dimer interface [polypeptide binding]; other site 880071008641 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 880071008642 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 880071008643 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 880071008644 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 880071008645 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 880071008646 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 880071008647 active site 880071008648 catalytic residues [active] 880071008649 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 880071008650 Amidohydrolase; Region: Amidohydro_4; pfam13147 880071008651 active site 880071008652 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 880071008653 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 880071008654 active site 880071008655 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 880071008656 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 880071008657 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 880071008658 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 880071008659 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 880071008660 catalytic triad [active] 880071008661 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 880071008662 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 880071008663 catalytic residues [active] 880071008664 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 880071008665 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 880071008666 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 880071008667 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_5; cd03408 880071008668 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 880071008669 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 880071008670 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 880071008671 ATP binding site [chemical binding]; other site 880071008672 putative Mg++ binding site [ion binding]; other site 880071008673 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 880071008674 nucleotide binding region [chemical binding]; other site 880071008675 ATP-binding site [chemical binding]; other site 880071008676 RQC domain; Region: RQC; pfam09382 880071008677 HRDC domain; Region: HRDC; pfam00570 880071008678 Ribbon-helix-helix domain; Region: RHH_4; cl01775 880071008679 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880071008680 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 880071008681 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 880071008682 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 880071008683 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 880071008684 ATP binding site [chemical binding]; other site 880071008685 substrate interface [chemical binding]; other site 880071008686 Protein of unknown function (DUF3822); Region: DUF3822; pfam12864 880071008687 methionine sulfoxide reductase B; Provisional; Region: PRK00222 880071008688 SelR domain; Region: SelR; pfam01641 880071008689 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 880071008690 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 880071008691 Walker A/P-loop; other site 880071008692 ATP binding site [chemical binding]; other site 880071008693 Q-loop/lid; other site 880071008694 ABC transporter signature motif; other site 880071008695 Walker B; other site 880071008696 D-loop; other site 880071008697 H-loop/switch region; other site 880071008698 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880071008699 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 880071008700 AAA domain; Region: AAA_28; pfam13521 880071008701 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 880071008702 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 880071008703 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 880071008704 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 880071008705 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 880071008706 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 880071008707 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 880071008708 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 880071008709 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 880071008710 dimer interface [polypeptide binding]; other site 880071008711 putative anticodon binding site; other site 880071008712 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 880071008713 motif 1; other site 880071008714 active site 880071008715 motif 2; other site 880071008716 motif 3; other site 880071008717 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 880071008718 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 880071008719 ATP binding site [chemical binding]; other site 880071008720 putative Mg++ binding site [ion binding]; other site 880071008721 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 880071008722 nucleotide binding region [chemical binding]; other site 880071008723 ATP-binding site [chemical binding]; other site 880071008724 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 880071008725 RNA binding site [nucleotide binding]; other site 880071008726 MepB protein; Region: MepB; cl01985 880071008727 TPR repeat; Region: TPR_11; pfam13414 880071008728 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 880071008729 TPR motif; other site 880071008730 TPR repeat; Region: TPR_11; pfam13414 880071008731 binding surface 880071008732 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 880071008733 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 880071008734 NAD(P) binding site [chemical binding]; other site 880071008735 homotetramer interface [polypeptide binding]; other site 880071008736 homodimer interface [polypeptide binding]; other site 880071008737 active site 880071008738 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 880071008739 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 880071008740 Ligand binding site; other site 880071008741 oligomer interface; other site 880071008742 S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_30; cl17711 880071008743 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 880071008744 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 880071008745 non-specific DNA binding site [nucleotide binding]; other site 880071008746 salt bridge; other site 880071008747 sequence-specific DNA binding site [nucleotide binding]; other site 880071008748 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 880071008749 Catalytic site [active] 880071008750 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 880071008751 nudix motif; other site 880071008752 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 880071008753 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 880071008754 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 880071008755 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 880071008756 PAS fold; Region: PAS_3; pfam08447 880071008757 putative active site [active] 880071008758 heme pocket [chemical binding]; other site 880071008759 PAS fold; Region: PAS_3; pfam08447 880071008760 PAS fold; Region: PAS_3; pfam08447 880071008761 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880071008762 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_1; cd06238 880071008763 putative active site [active] 880071008764 Zn binding site [ion binding]; other site 880071008765 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 880071008766 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 880071008767 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 880071008768 AAA domain; Region: AAA_23; pfam13476 880071008769 AAA domain; Region: AAA_21; pfam13304 880071008770 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880071008771 Walker B; other site 880071008772 D-loop; other site 880071008773 H-loop/switch region; other site 880071008774 AAA domain; Region: AAA_21; pfam13304 880071008775 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 880071008776 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 880071008777 substrate-cofactor binding pocket; other site 880071008778 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880071008779 catalytic residue [active] 880071008780 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 880071008781 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 880071008782 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 880071008783 active site 880071008784 nucleotide binding site [chemical binding]; other site 880071008785 HIGH motif; other site 880071008786 KMSKS motif; other site 880071008787 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl17194 880071008788 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 880071008789 DoxX-like family; Region: DoxX_2; pfam13564 880071008790 SnoaL-like domain; Region: SnoaL_3; pfam13474 880071008791 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 880071008792 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 880071008793 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880071008794 ribonuclease Z; Region: RNase_Z; TIGR02651 880071008795 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 880071008796 Immunoglobulin domain; Region: Ig_2; pfam13895 880071008797 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880071008798 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 880071008799 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 880071008800 catalytic residues [active] 880071008801 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 880071008802 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 880071008803 CoA-ligase; Region: Ligase_CoA; pfam00549 880071008804 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 880071008805 active site 880071008806 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 880071008807 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA; cd03877 880071008808 Peptidase family M28; Region: Peptidase_M28; pfam04389 880071008809 metal binding site [ion binding]; metal-binding site 880071008810 Uncharacterized conserved protein [Function unknown]; Region: COG4278 880071008811 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 880071008812 thymidylate synthase; Reviewed; Region: thyA; PRK01827 880071008813 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 880071008814 dimerization interface [polypeptide binding]; other site 880071008815 active site 880071008816 Cna protein B-type domain; Region: Cna_B_2; pfam13715 880071008817 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 880071008818 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 880071008819 N-terminal plug; other site 880071008820 ligand-binding site [chemical binding]; other site 880071008821 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880071008822 AAA domain; Region: AAA_21; pfam13304 880071008823 Walker A/P-loop; other site 880071008824 ATP binding site [chemical binding]; other site 880071008825 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880071008826 Walker B; other site 880071008827 D-loop; other site 880071008828 H-loop/switch region; other site 880071008829 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 880071008830 Part of AAA domain; Region: AAA_19; pfam13245 880071008831 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 880071008832 AAA domain; Region: AAA_12; pfam13087 880071008833 Fibrinogen alpha/beta chain family; Region: Fib_alpha; pfam08702 880071008834 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 880071008835 Dynamin family; Region: Dynamin_N; pfam00350 880071008836 G1 box; other site 880071008837 GTP/Mg2+ binding site [chemical binding]; other site 880071008838 G2 box; other site 880071008839 Switch I region; other site 880071008840 G3 box; other site 880071008841 Switch II region; other site 880071008842 G4 box; other site 880071008843 G5 box; other site 880071008844 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 880071008845 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 880071008846 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 880071008847 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 880071008848 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880071008849 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 880071008850 DNA binding residues [nucleotide binding] 880071008851 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 880071008852 active site 880071008853 Peptidase family S41; Region: Peptidase_S41; pfam03572 880071008854 Active site serine [active] 880071008855 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 880071008856 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 880071008857 ligand binding site [chemical binding]; other site 880071008858 flexible hinge region; other site 880071008859 Uncharacterized conserved protein [Function unknown]; Region: COG0327 880071008860 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 880071008861 PSP1 C-terminal conserved region; Region: PSP1; cl00770 880071008862 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 880071008863 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 880071008864 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 880071008865 NAD binding site [chemical binding]; other site 880071008866 catalytic residues [active] 880071008867 AAA domain; Region: AAA_30; pfam13604 880071008868 Family description; Region: UvrD_C_2; pfam13538 880071008869 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 880071008870 Putative cyclase; Region: Cyclase; pfam04199 880071008871 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 880071008872 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 880071008873 inhibitor-cofactor binding pocket; inhibition site 880071008874 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880071008875 catalytic residue [active] 880071008876 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 880071008877 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 880071008878 putative acyl-acceptor binding pocket; other site 880071008879 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 880071008880 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 880071008881 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880071008882 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 880071008883 DNA binding residues [nucleotide binding] 880071008884 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 880071008885 putative active site [active] 880071008886 putative metal binding residues [ion binding]; other site 880071008887 signature motif; other site 880071008888 putative dimer interface [polypeptide binding]; other site 880071008889 putative phosphate binding site [ion binding]; other site 880071008890 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 880071008891 Amidase; Region: Amidase; pfam01425 880071008892 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 880071008893 Transglycosylase; Region: Transgly; pfam00912 880071008894 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 880071008895 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 880071008896 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 880071008897 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 880071008898 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 880071008899 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 880071008900 NlpC/P60 family; Region: NLPC_P60; pfam00877 880071008901 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 880071008902 active site 880071008903 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 880071008904 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 880071008905 GAF domain; Region: GAF_3; pfam13492 880071008906 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880071008907 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 880071008908 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 880071008909 putative acyl-acceptor binding pocket; other site 880071008910 Imelysin; Region: Peptidase_M75; pfam09375 880071008911 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 880071008912 active site 880071008913 dimerization interface [polypeptide binding]; other site 880071008914 Short repeat of unknown function (DUF308); Region: DUF308; pfam03729 880071008915 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 880071008916 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_2; cd09618 880071008917 putative ligand binding site [chemical binding]; other site 880071008918 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 880071008919 Predicted ATPases of PP-loop superfamily [General function prediction only]; Region: COG2102 880071008920 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_IV; cd01994 880071008921 Ligand Binding Site [chemical binding]; other site 880071008922 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_3; cd07820 880071008923 putative hydrophobic ligand binding site [chemical binding]; other site 880071008924 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 880071008925 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 880071008926 GDP-binding site [chemical binding]; other site 880071008927 ACT binding site; other site 880071008928 IMP binding site; other site 880071008929 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 880071008930 anti sigma factor interaction site; other site 880071008931 regulatory phosphorylation site [posttranslational modification]; other site 880071008932 ferric uptake regulator; Provisional; Region: fur; PRK09462 880071008933 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 880071008934 metal binding site 2 [ion binding]; metal-binding site 880071008935 putative DNA binding helix; other site 880071008936 metal binding site 1 [ion binding]; metal-binding site 880071008937 dimer interface [polypeptide binding]; other site 880071008938 structural Zn2+ binding site [ion binding]; other site 880071008939 DNA protecting protein DprA; Region: dprA; TIGR00732 880071008940 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 880071008941 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 880071008942 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 880071008943 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 880071008944 putative RNA binding site [nucleotide binding]; other site 880071008945 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 880071008946 S-adenosylmethionine binding site [chemical binding]; other site 880071008947 chaperone protein DnaJ; Provisional; Region: PRK10767 880071008948 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 880071008949 HSP70 interaction site [polypeptide binding]; other site 880071008950 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 880071008951 substrate binding site [polypeptide binding]; other site 880071008952 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 880071008953 Zn binding sites [ion binding]; other site 880071008954 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 880071008955 dimer interface [polypeptide binding]; other site 880071008956 GrpE; Region: GrpE; pfam01025 880071008957 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 880071008958 dimer interface [polypeptide binding]; other site 880071008959 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 880071008960 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 880071008961 amidase catalytic site [active] 880071008962 Zn binding residues [ion binding]; other site 880071008963 substrate binding site [chemical binding]; other site 880071008964 DinB superfamily; Region: DinB_2; pfam12867 880071008965 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 880071008966 argininosuccinate lyase; Provisional; Region: PRK00855 880071008967 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 880071008968 active sites [active] 880071008969 tetramer interface [polypeptide binding]; other site 880071008970 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 880071008971 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like5; cd05651 880071008972 metal binding site [ion binding]; metal-binding site 880071008973 dimer interface [polypeptide binding]; other site 880071008974 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 880071008975 nucleotide binding site [chemical binding]; other site 880071008976 N-acetyl-L-glutamate binding site [chemical binding]; other site 880071008977 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 880071008978 N-acetylornithine carbamoyltransferase; Reviewed; Region: PRK04523 880071008979 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 880071008980 acetylornithine aminotransferase; Provisional; Region: PRK02627 880071008981 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 880071008982 inhibitor-cofactor binding pocket; inhibition site 880071008983 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880071008984 catalytic residue [active] 880071008985 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 880071008986 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 880071008987 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 880071008988 Ligand Binding Site [chemical binding]; other site 880071008989 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 880071008990 Coenzyme A binding pocket [chemical binding]; other site 880071008991 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cd00296 880071008992 intracellular protease, PfpI family; Region: PfpI; TIGR01382 880071008993 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 880071008994 conserved cys residue [active] 880071008995 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 880071008996 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 880071008997 inhibitor-cofactor binding pocket; inhibition site 880071008998 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880071008999 catalytic residue [active] 880071009000 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 880071009001 intersubunit interface [polypeptide binding]; other site 880071009002 active site 880071009003 catalytic residue [active] 880071009004 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 880071009005 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 880071009006 bacillithiol system oxidoreductase, YphP/YqiW family; Region: YphP_YqiW; TIGR04191 880071009007 Domain of unknown function DUF59; Region: DUF59; cl00941 880071009008 Fe-S metabolism associated domain; Region: SufE; cl00951 880071009009 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 880071009010 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 880071009011 Protein of unknown function DUF58; Region: DUF58; pfam01882 880071009012 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 880071009013 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 880071009014 TrkA-N domain; Region: TrkA_N; pfam02254 880071009015 Catalytic domain of Protein Kinases; Region: PKc; cd00180 880071009016 active site 880071009017 ATP binding site [chemical binding]; other site 880071009018 substrate binding site [chemical binding]; other site 880071009019 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 880071009020 activation loop (A-loop); other site 880071009021 AAA ATPase domain; Region: AAA_16; pfam13191 880071009022 Predicted ATPase [General function prediction only]; Region: COG3899 880071009023 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 880071009024 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 880071009025 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 880071009026 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 880071009027 Carbon starvation protein CstA; Region: CstA; pfam02554 880071009028 Carbon starvation protein CstA; Region: CstA; pfam02554 880071009029 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 880071009030 Protein of unknown function (DUF3109); Region: DUF3109; pfam11307 880071009031 Methyltransferase domain; Region: Methyltransf_32; pfam13679 880071009032 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 880071009033 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 880071009034 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609