-- dump date 20120504_145948 -- class Genbank::misc_feature -- table misc_feature_note -- id note 382638000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 382638000002 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 382638000003 Walker A motif; other site 382638000004 ATP binding site [chemical binding]; other site 382638000005 Walker B motif; other site 382638000006 arginine finger; other site 382638000007 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 382638000008 DnaA box-binding interface [nucleotide binding]; other site 382638000009 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 382638000010 active site 382638000011 DNA binding site [nucleotide binding] 382638000012 putative phosphate binding site [ion binding]; other site 382638000013 putative catalytic site [active] 382638000014 metal binding site A [ion binding]; metal-binding site 382638000015 AP binding site [nucleotide binding]; other site 382638000016 metal binding site B [ion binding]; metal-binding site 382638000017 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 382638000018 ATP-dependent DNA helicase RecG; Region: recG; TIGR00643 382638000019 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 382638000020 ssDNA binding site; other site 382638000021 generic binding surface II; other site 382638000022 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 382638000023 ATP binding site [chemical binding]; other site 382638000024 putative Mg++ binding site [ion binding]; other site 382638000025 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 382638000026 nucleotide binding region [chemical binding]; other site 382638000027 ATP-binding site [chemical binding]; other site 382638000028 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638000029 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638000030 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638000031 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 382638000032 Restriction endonuclease [Defense mechanisms]; Region: COG3587 382638000033 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 382638000034 ATP binding site [chemical binding]; other site 382638000035 putative Mg++ binding site [ion binding]; other site 382638000036 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 382638000037 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638000038 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 382638000039 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 382638000040 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 382638000041 substrate binding site [chemical binding]; other site 382638000042 active site 382638000043 catalytic residues [active] 382638000044 heterodimer interface [polypeptide binding]; other site 382638000045 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 382638000046 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 382638000047 pyridoxal 5'-phosphate binding site [chemical binding]; other site 382638000048 catalytic residue [active] 382638000049 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 382638000050 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 382638000051 active site 382638000052 ribulose/triose binding site [chemical binding]; other site 382638000053 phosphate binding site [ion binding]; other site 382638000054 substrate (anthranilate) binding pocket [chemical binding]; other site 382638000055 product (indole) binding pocket [chemical binding]; other site 382638000056 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 monomeric; Region: PRAI; cd00405 382638000057 active site 382638000058 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 382638000059 anthranilate phosphoribosyltransferase; Region: trpD; TIGR01245 382638000060 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 382638000061 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 382638000062 Glutamine amidotransferase class-I; Region: GATase; pfam00117 382638000063 glutamine binding [chemical binding]; other site 382638000064 catalytic triad [active] 382638000065 anthranilate synthase component I; Provisional; Region: PRK13564 382638000066 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 382638000067 chorismate binding enzyme; Region: Chorismate_bind; cl10555 382638000068 Sulfatase; Region: Sulfatase; cl10460 382638000069 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 382638000070 Sulfatase; Region: Sulfatase; cl10460 382638000071 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 382638000072 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 382638000073 active site 382638000074 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 382638000075 Oligomerisation domain; Region: Oligomerisation; cl00519 382638000076 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 382638000077 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 382638000078 This subfamily is composed of uncharacterized bacterial glycosyltransferases in the MraY-like family. This family contains both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases, which...; Region: GT_MraY_like; cd06912 382638000079 Mg++ binding site [ion binding]; other site 382638000080 putative catalytic motif [active] 382638000081 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 the...; Region: PNPsynthase; cd00003 382638000082 active site 382638000083 hydrophilic channel; other site 382638000084 dimerization interface [polypeptide binding]; other site 382638000085 catalytic residues [active] 382638000086 active site lid [active] 382638000087 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 382638000088 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 382638000089 Predicted ATPases [General function prediction only]; Region: COG1106 382638000090 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 382638000091 Walker A/P-loop; other site 382638000092 ATP binding site [chemical binding]; other site 382638000093 Nop14-like family; Region: Nop14; pfam04147 382638000094 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 382638000095 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 382638000096 dimer interface [polypeptide binding]; other site 382638000097 Citrate synthase; Region: Citrate_synt; pfam00285 382638000098 active site 382638000099 citrylCoA binding site [chemical binding]; other site 382638000100 NADH binding [chemical binding]; other site 382638000101 cationic pore residues; other site 382638000102 oxalacetate/citrate binding site [chemical binding]; other site 382638000103 coenzyme A binding site [chemical binding]; other site 382638000104 catalytic triad [active] 382638000105 isocitrate dehydrogenase; Validated; Region: PRK07362 382638000106 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 382638000107 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 382638000108 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 382638000109 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 382638000110 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 382638000111 Ligand Binding Site [chemical binding]; other site 382638000112 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 382638000113 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 382638000114 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 382638000115 Walker A motif; other site 382638000116 ATP binding site [chemical binding]; other site 382638000117 Walker B motif; other site 382638000118 arginine finger; other site 382638000119 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 382638000120 Walker A motif; other site 382638000121 ATP binding site [chemical binding]; other site 382638000122 Walker B motif; other site 382638000123 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 382638000124 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 382638000125 tetramerization interface [polypeptide binding]; other site 382638000126 active site 382638000127 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 382638000128 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 382638000129 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 382638000130 Type IV secretory pathway, TrbL components [Intracellular trafficking and secretion]; Region: TrbL; COG3846 382638000131 VirB8 protein; Region: VirB8; cl01500 382638000132 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 382638000133 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 382638000134 VirB7 interaction site; other site 382638000135 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 382638000136 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 382638000137 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 382638000138 Substrate binding site; other site 382638000139 Cupin domain; Region: Cupin_2; cl09118 382638000140 GDP-mannose 4,6-dehydratase; Region: gmd; TIGR01472 382638000141 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 382638000142 NADP-binding site; other site 382638000143 homotetramer interface [polypeptide binding]; other site 382638000144 substrate binding site [chemical binding]; other site 382638000145 homodimer interface [polypeptide binding]; other site 382638000146 active site 382638000147 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 382638000148 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 382638000149 NADP binding site [chemical binding]; other site 382638000150 active site 382638000151 putative substrate binding site [chemical binding]; other site 382638000152 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638000153 Prephenate dehydrogenase; Region: PDH; pfam02153 382638000154 ATP-dependent protease La; Region: lon; TIGR00763 382638000155 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 382638000156 Walker A motif; other site 382638000157 ATP binding site [chemical binding]; other site 382638000158 Walker B motif; other site 382638000159 arginine finger; other site 382638000160 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 382638000161 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 382638000162 FliW protein; Region: FliW; cl00740 382638000163 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 382638000164 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 382638000165 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 382638000166 active site 382638000167 endopeptidase Clp ATP-binding regulatory subunit (clpX); Region: clpX; TIGR00382 382638000168 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 382638000169 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 382638000170 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 382638000171 Walker A motif; other site 382638000172 ATP binding site [chemical binding]; other site 382638000173 Walker B motif; other site 382638000174 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 382638000175 rod shape-determining protein MreB; Provisional; Region: PRK13927 382638000176 Actin; An ubiquitous protein involved in the formation of filaments that are a major component of the cytoskeleton. Interaction with myosin provides the basis of muscular contraction and many aspects of cell motility. Each actin protomer binds one...; Region: ACTIN; cl11528 382638000177 ATP binding site [chemical binding]; other site 382638000178 profilin binding site; other site 382638000179 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 382638000180 rod shape-determining protein MreC; Region: MreC; pfam04085 382638000181 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 382638000182 Sulfatase; Region: Sulfatase; cl10460 382638000183 Sulfatase; Region: Sulfatase; cl10460 382638000184 transcription elongation factor NusA; Provisional; Region: nusA; PRK12328 382638000185 NusA N-terminal domain; Region: NusA_N; pfam08529 382638000186 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 382638000187 RNA binding site [nucleotide binding]; other site 382638000188 homodimer interface [polypeptide binding]; other site 382638000189 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 382638000190 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 382638000191 G-X-X-G motif; other site 382638000192 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 382638000193 L-seryl-tRNA selenium transferase; Region: SelA; pfam03841 382638000194 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; cl00284 382638000195 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; cl00284 382638000196 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 382638000197 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 382638000198 active site 382638000199 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 382638000200 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 382638000201 4Fe-4S binding domain; Region: Fer4_5; pfam12801 382638000202 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 382638000203 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 382638000204 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638000205 NAD(P) binding pocket [chemical binding]; other site 382638000206 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 382638000207 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 382638000208 catalytic motif [active] 382638000209 Zn binding site [ion binding]; other site 382638000210 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; cl00161 382638000211 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 382638000212 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 382638000213 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 382638000214 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 382638000215 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 382638000216 metal-binding site [ion binding] 382638000217 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 382638000218 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 382638000219 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 382638000220 dimerization interface [polypeptide binding]; other site 382638000221 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 382638000222 ATP binding site [chemical binding]; other site 382638000223 Acylphosphatase; Region: Acylphosphatase; cl00551 382638000224 [NiFe] hydrogenase maturation protein HypF; Region: hypF; TIGR00143 382638000225 HypF finger; Region: zf-HYPF; pfam07503 382638000226 HypF finger; Region: zf-HYPF; pfam07503 382638000227 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 382638000228 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 382638000229 agmatine deiminase; Region: agmatine_aguA; TIGR03380 382638000230 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638000231 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; cl15754 382638000232 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; cl15754 382638000233 substrate interaction site [chemical binding]; other site 382638000234 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; cl15754 382638000235 cofactor binding site; other site 382638000236 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 382638000237 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 382638000238 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 382638000239 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 382638000240 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 382638000241 putative active site [active] 382638000242 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 382638000243 haloacid dehalogenase superfamily, subfamily IA, variant 1 with third motif having Dx(3-4)D or Dx(3-4)E; Region: HAD-SF-IA-v1; TIGR01549 382638000244 active site 382638000245 motif I; other site 382638000246 motif II; other site 382638000247 YceI-like domain; Region: YceI; cl01001 382638000248 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13904 382638000249 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 382638000250 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 382638000251 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08472 382638000252 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 382638000253 Walker A motif/ATP binding site; other site 382638000254 Walker B motif; other site 382638000255 Type IV secretory pathway, VirB11 components, and related ATPases involved in archaeal flagella biosynthesis [Cell motility and secretion / Intracellular trafficking and secretion]; Region: VirB11; COG0630 382638000256 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 382638000257 ATP binding site [chemical binding]; other site 382638000258 Walker A motif; other site 382638000259 hexamer interface [polypeptide binding]; other site 382638000260 Walker B motif; other site 382638000261 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 382638000262 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 382638000263 active site 382638000264 HIGH motif; other site 382638000265 nucleotide binding site [chemical binding]; other site 382638000266 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 382638000267 active site 382638000268 KMSKS motif; other site 382638000269 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 382638000270 tRNA binding surface [nucleotide binding]; other site 382638000271 anticodon binding site; other site 382638000272 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 382638000273 RNA binding surface [nucleotide binding]; other site 382638000274 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638000275 conserved hypothetical protein; Region: MG423; TIGR00649 382638000276 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 382638000277 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 382638000278 KpsF/GutQ family protein; Region: kpsF; TIGR00393 382638000279 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 382638000280 putative active site [active] 382638000281 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 382638000282 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14462 382638000283 radical SAM enzyme, TIGR04100 family; Region: rSAM_pair_X 382638000284 Maf_Ham1. Maf, a nucleotide binding protein, has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea. A Ham1-related protein from Methanococcus jannaschii is a novel NTPase that has been shown to hydrolyze nonstandard...; Region: Maf_Ham1; cl00276 382638000285 putative active site [active] 382638000286 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 382638000287 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 formation of...; Region: AlaRS_core; cd00673 382638000288 motif 1; other site 382638000289 active site 382638000290 motif 2; other site 382638000291 motif 3; other site 382638000292 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 382638000293 DHHA1 domain; Region: DHHA1; pfam02272 382638000294 Protein of unknown function (DUF465); Region: DUF465; cl01070 382638000295 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 382638000296 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 382638000297 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 382638000298 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 382638000299 generic binding surface I; other site 382638000300 generic binding surface II; other site 382638000301 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 382638000302 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 382638000303 RNA binding surface [nucleotide binding]; other site 382638000304 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 382638000305 active site 382638000306 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 382638000307 catalytic residues [active] 382638000308 fumarate hydratase; Reviewed; Region: fumC; PRK00485 382638000309 Class II fumarases; Region: Fumarase_classII; cd01362 382638000310 active site 382638000311 tetramer interface [polypeptide binding]; other site 382638000312 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 382638000313 RNA/DNA hybrid binding site [nucleotide binding]; other site 382638000314 active site 382638000315 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 382638000316 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 382638000317 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 382638000318 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 382638000319 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 382638000320 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 382638000321 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 382638000322 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 382638000323 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 382638000324 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 382638000325 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 382638000326 putative translocon binding site; other site 382638000327 protein-rRNA interface [nucleotide binding]; other site 382638000328 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 382638000329 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 382638000330 G-X-X-G motif; other site 382638000331 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 382638000332 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 382638000333 23S rRNA interface [nucleotide binding]; other site 382638000334 5S rRNA interface [nucleotide binding]; other site 382638000335 putative antibiotic binding site [chemical binding]; other site 382638000336 L25 interface [polypeptide binding]; other site 382638000337 L27 interface [polypeptide binding]; other site 382638000338 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 382638000339 putative translocon interaction site; other site 382638000340 23S rRNA interface [nucleotide binding]; other site 382638000341 signal recognition particle (SRP54) interaction site; other site 382638000342 L23 interface [polypeptide binding]; other site 382638000343 trigger factor interaction site; other site 382638000344 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 382638000345 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 382638000346 KOW motif; Region: KOW; cl00354 382638000347 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 382638000348 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 382638000349 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 382638000350 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 382638000351 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 382638000352 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 382638000353 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 382638000354 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 382638000355 23S rRNA interface [nucleotide binding]; other site 382638000356 5S rRNA interface [nucleotide binding]; other site 382638000357 L27 interface [polypeptide binding]; other site 382638000358 L5 interface [polypeptide binding]; other site 382638000359 ribosomal protein S5, bacterial/organelle type; Region: rpsE_bact; TIGR01021 382638000360 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 382638000361 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 382638000362 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 382638000363 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 382638000364 SecY translocase; Region: SecY; pfam00344 382638000365 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 382638000366 active site 382638000367 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 382638000368 rRNA binding site [nucleotide binding]; other site 382638000369 predicted 30S ribosome binding site; other site 382638000370 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 382638000371 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 382638000372 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 382638000373 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 382638000374 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 382638000375 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 382638000376 RNA binding surface [nucleotide binding]; other site 382638000377 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 382638000378 alphaNTD homodimer interface [polypeptide binding]; other site 382638000379 DNA-directed RNA polymerase, alpha subunit, bacterial and chloroplast-type; Region: rpoA; TIGR02027 382638000380 alphaNTD - beta interaction site [polypeptide binding]; other site 382638000381 alphaNTD - beta' interaction site [polypeptide binding]; other site 382638000382 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 382638000383 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 382638000384 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 382638000385 TolB amino-terminal domain; Region: TolB_N; cl00639 382638000386 LPP20 lipoprotein; Region: LPP20; cl15824 382638000387 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 382638000388 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 382638000389 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 382638000390 GTP/Mg2+ binding site [chemical binding]; other site 382638000391 G4 box; other site 382638000392 G5 box; other site 382638000393 trmE is a tRNA modification GTPase; Region: trmE; cd04164 382638000394 G1 box; other site 382638000395 G1 box; other site 382638000396 GTP/Mg2+ binding site [chemical binding]; other site 382638000397 Switch I region; other site 382638000398 Switch I region; other site 382638000399 G2 box; other site 382638000400 G2 box; other site 382638000401 Switch II region; other site 382638000402 G3 box; other site 382638000403 G3 box; other site 382638000404 Switch II region; other site 382638000405 G4 box; other site 382638000406 G5 box; other site 382638000407 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 382638000408 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 382638000409 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 382638000410 membrane protein insertase; Provisional; Region: PRK01318 382638000411 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 382638000412 Haemolytic domain; Region: Haemolytic; cl00506 382638000413 Ribonuclease P; Region: Ribonuclease_P; cl00457 382638000414 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 382638000415 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 382638000416 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 382638000417 SmpB-tmRNA interface; other site 382638000418 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK04181 382638000419 Global regulator protein family; Region: CsrA; cl00670 382638000420 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 382638000421 active site 382638000422 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638000423 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638000424 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638000425 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 382638000426 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 382638000427 active site 382638000428 phosphorylation site [posttranslational modification] 382638000429 intermolecular recognition site; other site 382638000430 dimerization interface [polypeptide binding]; other site 382638000431 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 382638000432 DNA binding site [nucleotide binding] 382638000433 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 382638000434 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 382638000435 ATP binding site [chemical binding]; other site 382638000436 Mg2+ binding site [ion binding]; other site 382638000437 G-X-G motif; other site 382638000438 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 382638000439 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 382638000440 putative substrate binding site [chemical binding]; other site 382638000441 putative ATP binding site [chemical binding]; other site 382638000442 replicative DNA helicase; Provisional; Region: PRK08506 382638000443 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 382638000444 DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a...; Region: DnaB_C; cd00984 382638000445 Walker A motif; other site 382638000446 ATP binding site [chemical binding]; other site 382638000447 Walker B motif; other site 382638000448 DNA binding loops [nucleotide binding] 382638000449 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 382638000450 Competence protein; Region: Competence; cl00471 382638000451 UbiA prenyltransferase family; Region: UbiA; cl00337 382638000452 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 382638000453 Quinolinate synthetase A protein; Region: NadA; cl00420 382638000454 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK05848 382638000455 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 382638000456 dimerization interface [polypeptide binding]; other site 382638000457 active site 382638000458 Predicted helicase [General function prediction only]; Region: COG4889 382638000459 Predicted helicase [General function prediction only]; Region: COG4889 382638000460 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 382638000461 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 382638000462 Thiamine pyrophosphokinase; Region: TPK; cd07995 382638000463 active site 382638000464 dimerization interface [polypeptide binding]; other site 382638000465 thiamine binding site [chemical binding]; other site 382638000466 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 382638000467 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 382638000468 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 382638000469 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 382638000470 active site 382638000471 substrate binding site [chemical binding]; other site 382638000472 metal binding site [ion binding]; metal-binding site 382638000473 proton-translocating NADH-quinone oxidoreductase, chain N; Region: NDH_I_N; TIGR01770 382638000474 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 382638000475 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 382638000476 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 382638000477 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 382638000478 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 382638000479 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 382638000480 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 382638000481 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 382638000482 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 382638000483 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 382638000484 4Fe-4S binding domain; Region: Fer4; cl02805 382638000485 4Fe-4S binding domain; Region: Fer4; cl02805 382638000486 NADH dehydrogenase; Region: NADHdh; cl00469 382638000487 NADH dehydrogenase subunit G; Validated; Region: PRK08493 382638000488 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 382638000489 catalytic loop [active] 382638000490 iron binding site [ion binding]; other site 382638000491 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 382638000492 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 382638000493 molybdopterin cofactor binding site; other site 382638000494 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 382638000495 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 382638000496 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 382638000497 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl15771 382638000498 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 382638000499 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 382638000500 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 382638000501 NAD+ binding site [chemical binding]; other site 382638000502 substrate binding site [chemical binding]; other site 382638000503 Zn binding site [ion binding]; other site 382638000504 RDD family; Region: RDD; cl00746 382638000505 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 382638000506 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 382638000507 active site 382638000508 ribosome recycling factor; Reviewed; Region: frr; PRK00083 382638000509 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 round of...; Region: RRF; cd00520 382638000510 hinge region; other site 382638000511 Preprotein translocase SecG subunit; Region: SecG; cl09123 382638000512 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 382638000513 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638000514 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 382638000515 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 382638000516 active site 382638000517 HIGH motif; other site 382638000518 dimer interface [polypeptide binding]; other site 382638000519 KMSKS motif; other site 382638000520 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; cl01709 382638000521 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; cl01709 382638000522 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; cl01709 382638000523 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; cl01709 382638000524 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 382638000525 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 382638000526 Bacterial SH3 domain; Region: SH3_3; cl02551 382638000527 shikimate 5-dehydrogenase; Region: aroE; TIGR00507 382638000528 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 382638000529 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 382638000530 shikimate binding site; other site 382638000531 NAD(P) binding site [chemical binding]; other site 382638000532 Exoribonuclease R [Transcription]; Region: VacB; COG0557 382638000533 RNB domain; Region: RNB; pfam00773 382638000534 DNA polymerase III subunit delta; Validated; Region: PRK08487 382638000535 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 382638000536 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 382638000537 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 382638000538 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 382638000539 dimer interface [polypeptide binding]; other site 382638000540 ssDNA binding site [nucleotide binding]; other site 382638000541 tetramer (dimer of dimers) interface [polypeptide binding]; other site 382638000542 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 382638000543 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 382638000544 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 382638000545 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 382638000546 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 382638000547 putative RNA binding site [nucleotide binding]; other site 382638000548 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 382638000549 homopentamer interface [polypeptide binding]; other site 382638000550 active site 382638000551 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 382638000552 NeuB family; Region: NeuB; cl00496 382638000553 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_cladeB; cd00884 382638000554 active site clefts [active] 382638000555 zinc binding site [ion binding]; other site 382638000556 dimer interface [polypeptide binding]; other site 382638000557 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 contains two...; Region: OMP_decarboxylase_like; cd04725 382638000558 active site 382638000559 dimer interface [polypeptide binding]; other site 382638000560 pantoate--beta-alanine ligase; Region: panC; TIGR00018 382638000561 Pantoate-beta-alanine ligase; Region: PanC; cd00560 382638000562 active site 382638000563 ATP-binding site [chemical binding]; other site 382638000564 pantoate-binding site; other site 382638000565 HXXH motif; other site 382638000566 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 382638000567 AzlC protein; Region: AzlC; cl00570 382638000568 chaperone protein DnaJ; Provisional; Region: PRK14288 382638000569 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 382638000570 HSP70 interaction site [polypeptide binding]; other site 382638000571 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 382638000572 substrate binding site [polypeptide binding]; other site 382638000573 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 382638000574 Zn binding sites [ion binding]; other site 382638000575 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 382638000576 dimer interface [polypeptide binding]; other site 382638000577 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Region: trmU; TIGR00420 382638000578 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 382638000579 Ligand Binding Site [chemical binding]; other site 382638000580 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 382638000581 HSP70 interaction site [polypeptide binding]; other site 382638000582 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 382638000583 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 382638000584 active site 382638000585 (T/H)XGH motif; other site 382638000586 nickel responsive regulator; Provisional; Region: PRK00630 382638000587 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 382638000588 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 382638000589 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 382638000590 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 382638000591 Gram-negative bacterial tonB protein; Region: TonB; cl10048 382638000592 Integral membrane protein TerC family; Region: TerC; cl10468 382638000593 magnesium Mg(2+) and cobalt Co(2+) transport protein (corA); Region: corA; TIGR00383 382638000594 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 382638000595 Phosphoglycerate kinase; Region: PGK; pfam00162 382638000596 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; cl00198 382638000597 substrate binding site [chemical binding]; other site 382638000598 hinge regions; other site 382638000599 ADP binding site [chemical binding]; other site 382638000600 catalytic site [active] 382638000601 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638000602 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 382638000603 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 382638000604 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 382638000605 ligand binding site [chemical binding]; other site 382638000606 active site 382638000607 UGI interface [polypeptide binding]; other site 382638000608 catalytic site [active] 382638000609 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 382638000610 putative acyl-acceptor binding pocket; other site 382638000611 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 382638000612 C-terminal peptidase (prc); Region: prc; TIGR00225 382638000613 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 382638000614 protein binding site [polypeptide binding]; other site 382638000615 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 382638000616 Catalytic dyad [active] 382638000617 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 382638000618 metallohydrolase, glycoprotease/Kae1 family; Region: gcp_kae1; TIGR00329 382638000619 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 382638000620 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; cl15754 382638000621 cofactor binding site; other site 382638000622 DNA binding site [nucleotide binding] 382638000623 substrate interaction site [chemical binding]; other site 382638000624 elongation factor Ts; Provisional; Region: tsf; PRK09377 382638000625 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 382638000626 Elongation factor TS; Region: EF_TS; pfam00889 382638000627 Elongation factor TS; Region: EF_TS; pfam00889 382638000628 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 382638000629 rRNA interaction site [nucleotide binding]; other site 382638000630 S8 interaction site; other site 382638000631 putative laminin-1 binding site; other site 382638000632 putative recombination protein RecB; Provisional; Region: PRK13909 382638000633 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 382638000634 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 382638000635 Preprotein translocase subunit; Region: YajC; cl00806 382638000636 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 382638000637 Protein export membrane protein; Region: SecD_SecF; cl14618 382638000638 protein-export membrane protein SecF; Region: 3a0501s07; TIGR00966 382638000639 Protein export membrane protein; Region: SecD_SecF; cl14618 382638000640 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 382638000641 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 382638000642 HIGH motif; other site 382638000643 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 382638000644 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 382638000645 active site 382638000646 KMSKS motif; other site 382638000647 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 382638000648 tRNA binding surface [nucleotide binding]; other site 382638000649 Lipopolysaccharide-assembly; Region: LptE; cl01125 382638000650 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 382638000651 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 382638000652 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 382638000653 Peptidase family M23; Region: Peptidase_M23; pfam01551 382638000654 Peptidase family M23; Region: Peptidase_M23; pfam01551 382638000655 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 382638000656 transcription-repair coupling factor (mfd); Region: mfd; TIGR00580 382638000657 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 382638000658 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 382638000659 ATP binding site [chemical binding]; other site 382638000660 putative Mg++ binding site [ion binding]; other site 382638000661 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 382638000662 nucleotide binding region [chemical binding]; other site 382638000663 ATP-binding site [chemical binding]; other site 382638000664 TRCF domain; Region: TRCF; cl04088 382638000665 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 382638000666 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 382638000667 [2Fe-2S] cluster binding site [ion binding]; other site 382638000668 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 382638000669 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 382638000670 intrachain domain interface; other site 382638000671 interchain domain interface [polypeptide binding]; other site 382638000672 heme bH binding site [chemical binding]; other site 382638000673 Qi binding site; other site 382638000674 heme bL binding site [chemical binding]; other site 382638000675 Qo binding site; other site 382638000676 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cl00193 382638000677 interchain domain interface [polypeptide binding]; other site 382638000678 intrachain domain interface; other site 382638000679 Qi binding site; other site 382638000680 Qo binding site; other site 382638000681 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 382638000682 Cytochrome c; Region: Cytochrom_C; cl11414 382638000683 Cytochrome c; Region: Cytochrom_C; cl11414 382638000684 serine O-acetyltransferase; Region: cysE; TIGR01172 382638000685 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 382638000686 trimer interface [polypeptide binding]; other site 382638000687 active site 382638000688 substrate binding site [chemical binding]; other site 382638000689 CoA binding site [chemical binding]; other site 382638000690 ICEA Protein; Region: ICEA; pfam05315 382638000691 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638000692 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 382638000693 Ligand binding site; other site 382638000694 oligomer interface; other site 382638000695 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 382638000696 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 382638000697 hypothetical protein; Provisional; Region: PRK04081 382638000698 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl00503 382638000699 Endoplasmic reticulum-based factor for assembly of V-ATPase; Region: Vma12; pfam11712 382638000700 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 382638000701 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 382638000702 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 382638000703 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 382638000704 Transmembrane amino acid transporter protein; Region: Aa_trans; cl15776 382638000705 Class-II DAHP synthetase family; Region: DAHP_synth_2; cl03230 382638000706 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 382638000707 catalytic triad [active] 382638000708 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 382638000709 iron-sulfur cluster-binding protein; Region: TIGR00273 382638000710 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 382638000711 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 382638000712 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 382638000713 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 382638000714 Cysteine-rich domain; Region: CCG; pfam02754 382638000715 Cysteine-rich domain; Region: CCG; pfam02754 382638000716 L-lactate permease; Region: Lactate_perm; cl00701 382638000717 glycolate transporter; Provisional; Region: PRK09695 382638000718 DNA glycosylase MutY; Provisional; Region: PRK13910 382638000719 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 382638000720 minor groove reading motif; other site 382638000721 helix-hairpin-helix signature motif; other site 382638000722 substrate binding pocket [chemical binding]; other site 382638000723 active site 382638000724 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 382638000725 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 382638000726 transmembrane helices; other site 382638000727 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 382638000728 Low-spin heme binding site [chemical binding]; other site 382638000729 D-pathway; other site 382638000730 Putative water exit pathway; other site 382638000731 Binuclear center (active site) [active] 382638000732 K-pathway; other site 382638000733 Putative proton exit pathway; other site 382638000734 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 382638000735 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 382638000736 Cytochrome cbb oxidase CcoQ. 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 of O2...; Region: cbb3_Oxidase_CcoQ; cl00282 382638000737 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 382638000738 Cytochrome c; Region: Cytochrom_C; cl11414 382638000739 Cytochrome c; Region: Cytochrom_C; cl11414 382638000740 Family of unknown function (DUF4006); Region: DUF4006; pfam13179 382638000741 NMT1-like family; Region: NMT1_2; cl15260 382638000742 recombinase A; Provisional; Region: recA; PRK09354 382638000743 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 382638000744 hexamer interface [polypeptide binding]; other site 382638000745 Walker A motif; other site 382638000746 ATP binding site [chemical binding]; other site 382638000747 Walker B motif; other site 382638000748 enolase; Provisional; Region: eno; PRK00077 382638000749 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 382638000750 dimer interface [polypeptide binding]; other site 382638000751 metal binding site [ion binding]; metal-binding site 382638000752 substrate binding pocket [chemical binding]; other site 382638000753 AMIN domain; Region: AMIN; pfam11741 382638000754 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 382638000755 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 382638000756 ADP binding site [chemical binding]; other site 382638000757 magnesium binding site [ion binding]; other site 382638000758 putative shikimate binding site; other site 382638000759 Cache domain; Region: Cache_1; pfam02743 382638000760 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 382638000761 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 382638000762 Ligand binding site; other site 382638000763 metal-binding site 382638000764 Sel1 repeat; Region: Sel1; cl02723 382638000765 Sel1 repeat; Region: Sel1; cl02723 382638000766 Sel1 repeat; Region: Sel1; cl02723 382638000767 Sel1 repeat; Region: Sel1; cl02723 382638000768 Sel1 repeat; Region: Sel1; cl02723 382638000769 Sel1 repeat; Region: Sel1; cl02723 382638000770 Transcriptional regulator; Region: Transcrip_reg; cl00361 382638000771 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 382638000772 dimer interface [polypeptide binding]; other site 382638000773 active site 382638000774 Schiff base residues; other site 382638000775 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 382638000776 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 382638000777 dimer interface [polypeptide binding]; other site 382638000778 phosphorylation site [posttranslational modification] 382638000779 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 382638000780 ATP binding site [chemical binding]; other site 382638000781 Mg2+ binding site [ion binding]; other site 382638000782 G-X-G motif; other site 382638000783 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 382638000784 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 382638000785 active site 382638000786 phosphorylation site [posttranslational modification] 382638000787 intermolecular recognition site; other site 382638000788 dimerization interface [polypeptide binding]; other site 382638000789 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 382638000790 DNA binding site [nucleotide binding] 382638000791 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 382638000792 Peptidase family U32; Region: Peptidase_U32; cl03113 382638000793 peptide chain release factor 2; Region: prfB; TIGR00020 382638000794 RF-1 domain; Region: RF-1; cl02875 382638000795 RF-1 domain; Region: RF-1; cl02875 382638000796 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 382638000797 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 382638000798 peptidyl-prolyl cis-trans isomerase, EpsD family; Region: cis_trans_EpsD; TIGR02925 382638000799 PPIC-type PPIASE domain; Region: Rotamase; cl08278 382638000800 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 382638000801 hypothetical protein; Provisional; Region: PRK08185 382638000802 intersubunit interface [polypeptide binding]; other site 382638000803 active site 382638000804 zinc binding site [ion binding]; other site 382638000805 Na+ binding site [ion binding]; other site 382638000806 elongation factor P; Validated; Region: PRK00529 382638000807 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 382638000808 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 382638000809 RNA binding site [nucleotide binding]; other site 382638000810 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 382638000811 RNA binding site [nucleotide binding]; other site 382638000812 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; cl15754 382638000813 DNA binding site [nucleotide binding] 382638000814 substrate interaction site [chemical binding]; other site 382638000815 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; cl15754 382638000816 GTPase subunit of restriction endonuclease [Defense mechanisms]; Region: McrB; COG1401 382638000817 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 382638000818 LlaJI restriction endonuclease; Region: RE_LlaJI; pfam09563 382638000819 pseudaminic acid synthase; Region: PseI; TIGR03586 382638000820 NeuB family; Region: NeuB; cl00496 382638000821 SAF domain; Region: SAF; cl00555 382638000822 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 382638000823 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 382638000824 Walker A/P-loop; other site 382638000825 ATP binding site [chemical binding]; other site 382638000826 Q-loop/lid; other site 382638000827 ABC transporter signature motif; other site 382638000828 Walker B; other site 382638000829 D-loop; other site 382638000830 H-loop/switch region; other site 382638000831 apolipoprotein N-acyltransferase; Reviewed; Region: PRK12291 382638000832 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 382638000833 active site 382638000834 catalytic triad [active] 382638000835 Colicin V production protein; Region: Colicin_V; cl00567 382638000836 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 382638000837 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 382638000838 dimer interface [polypeptide binding]; other site 382638000839 putative anticodon binding site; other site 382638000840 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 382638000841 motif 1; other site 382638000842 active site 382638000843 motif 2; other site 382638000844 motif 3; other site 382638000845 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 382638000846 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 382638000847 dimer interface [polypeptide binding]; other site 382638000848 glycine-pyridoxal phosphate binding site [chemical binding]; other site 382638000849 active site 382638000850 folate binding site [chemical binding]; other site 382638000851 Domain of unknown function (DUF1882); Region: DUF1882; pfam08966 382638000852 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 382638000853 Protein of unknown function (DUF3519); Region: DUF3519; pfam12033 382638000854 crystallin beta/gamma motif-containing protein; Region: PHA00657 382638000855 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 382638000856 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 382638000857 PLD-like domain; Region: PLDc_2; pfam13091 382638000858 putative active site [active] 382638000859 catalytic site [active] 382638000860 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 382638000861 PLD-like domain; Region: PLDc_2; pfam13091 382638000862 putative active site [active] 382638000863 catalytic site [active] 382638000864 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 382638000865 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; cl00159 382638000866 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 382638000867 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 382638000868 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638000869 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 382638000870 Quinol:fumarate reductase (QFR) Type B subfamily, transmembrane subunit; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinone...; Region: QFR_TypeB_TM; cd00581 382638000871 Iron-sulfur protein interface; other site 382638000872 proximal heme binding site [chemical binding]; other site 382638000873 distal heme binding site [chemical binding]; other site 382638000874 dimer interface [polypeptide binding]; other site 382638000875 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 382638000876 substrate binding site [chemical binding]; other site 382638000877 dimer interface [polypeptide binding]; other site 382638000878 catalytic triad [active] 382638000879 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 382638000880 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 382638000881 NAD binding site [chemical binding]; other site 382638000882 homotetramer interface [polypeptide binding]; other site 382638000883 homodimer interface [polypeptide binding]; other site 382638000884 substrate binding site [chemical binding]; other site 382638000885 active site 382638000886 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Region: lipid_A_lpxD; TIGR01853 382638000887 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 382638000888 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 382638000889 trimer interface [polypeptide binding]; other site 382638000890 active site 382638000891 UDP-GlcNAc binding site [chemical binding]; other site 382638000892 lipid binding site [chemical binding]; lipid-binding site 382638000893 S-adenosylmethionine synthetase; Validated; Region: PRK05250 382638000894 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 382638000895 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 382638000896 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 382638000897 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 382638000898 active site 382638000899 multimer interface [polypeptide binding]; other site 382638000900 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 382638000901 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 382638000902 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 382638000903 3-oxoacyl-(acyl-carrier-protein) synthase III; Region: fabH; TIGR00747 382638000904 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 382638000905 dimer interface [polypeptide binding]; other site 382638000906 active site 382638000907 CoA binding pocket [chemical binding]; other site 382638000908 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 382638000909 active site 382638000910 zinc binding site [ion binding]; other site 382638000911 putative arabinose transporter; Provisional; Region: PRK03545 382638000912 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 382638000913 putative substrate translocation pore; other site 382638000914 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 382638000915 MatE; Region: MatE; cl10513 382638000916 MatE; Region: MatE; cl10513 382638000917 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 382638000918 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 382638000919 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 382638000920 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 382638000921 Ligand Binding Site [chemical binding]; other site 382638000922 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 382638000923 Major Facilitator Superfamily; Region: MFS_1; pfam07690 382638000924 putative substrate translocation pore; other site 382638000925 nucleoside transporter; Region: nupC; TIGR00804 382638000926 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 382638000927 Nucleoside recognition; Region: Gate; cl00486 382638000928 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 382638000929 Sulfatase; Region: Sulfatase; cl10460 382638000930 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 382638000931 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 382638000932 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 382638000933 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 382638000934 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 382638000935 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; cl11420 382638000936 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 382638000937 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 382638000938 substrate binding pocket [chemical binding]; other site 382638000939 membrane-bound complex binding site; other site 382638000940 hinge residues; other site 382638000941 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 382638000942 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 382638000943 Walker A/P-loop; other site 382638000944 ATP binding site [chemical binding]; other site 382638000945 Q-loop/lid; other site 382638000946 ABC transporter signature motif; other site 382638000947 Walker B; other site 382638000948 D-loop; other site 382638000949 H-loop/switch region; other site 382638000950 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 382638000951 dimer interface [polypeptide binding]; other site 382638000952 conserved gate region; other site 382638000953 putative PBP binding loops; other site 382638000954 ABC-ATPase subunit interface; other site 382638000955 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 382638000956 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 382638000957 dimer interface [polypeptide binding]; other site 382638000958 conserved gate region; other site 382638000959 putative PBP binding loops; other site 382638000960 ABC-ATPase subunit interface; other site 382638000961 carbon starvation protein A; Provisional; Region: PRK15015 382638000962 Carbon starvation protein CstA; Region: CstA; pfam02554 382638000963 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 382638000964 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 382638000965 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 382638000966 dimer interface [polypeptide binding]; other site 382638000967 putative radical transfer pathway; other site 382638000968 diiron center [ion binding]; other site 382638000969 tyrosyl radical; other site 382638000970 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 382638000971 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 382638000972 S-adenosylmethionine binding site [chemical binding]; other site 382638000973 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 382638000974 pseudouridylate synthase I; Region: hisT_truA; TIGR00071 382638000975 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 382638000976 dimerization interface 3.5A [polypeptide binding]; other site 382638000977 active site 382638000978 UDP-glucose-4-epimerase; Region: galE; TIGR01179 382638000979 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 382638000980 NAD binding site [chemical binding]; other site 382638000981 homodimer interface [polypeptide binding]; other site 382638000982 active site 382638000983 substrate binding site [chemical binding]; other site 382638000984 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 382638000985 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 382638000986 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 382638000987 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 382638000988 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 382638000989 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 382638000990 S-adenosylmethionine binding site [chemical binding]; other site 382638000991 primosome assembly protein PriA; Validated; Region: PRK05580 382638000992 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 382638000993 ATP binding site [chemical binding]; other site 382638000994 putative Mg++ binding site [ion binding]; other site 382638000995 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 382638000996 Protein of unknown function (DUF3519); Region: DUF3519; pfam12033 382638000997 excinuclease ABC subunit B; Provisional; Region: PRK05298 382638000998 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 382638000999 ATP binding site [chemical binding]; other site 382638001000 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 382638001001 nucleotide binding region [chemical binding]; other site 382638001002 ATP-binding site [chemical binding]; other site 382638001003 Ultra-violet resistance protein B; Region: UvrB; pfam12344 382638001004 UvrB/uvrC motif; Region: UVR; pfam02151 382638001005 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 382638001006 adenylosuccinate lyase; Provisional; Region: PRK08470 382638001007 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 382638001008 tetramer interface [polypeptide binding]; other site 382638001009 active site 382638001010 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 382638001011 pyruvate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11865 382638001012 Thiamine pyrophosphate (TPP family), PFOR porB-like subfamily, TPP-binding module; composed of proteins similar to the beta subunit (porB) of the Helicobacter pylori four-subunit pyruvate ferredoxin oxidoreductase (PFOR), which are also found in archaea...; Region: TPP_PFOR_porB_like; cd03376 382638001013 TPP-binding site [chemical binding]; other site 382638001014 putative dimer interface [polypeptide binding]; other site 382638001015 pyruvate flavodoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK09622 382638001016 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 382638001017 dimer interface [polypeptide binding]; other site 382638001018 PYR/PP interface [polypeptide binding]; other site 382638001019 TPP binding site [chemical binding]; other site 382638001020 substrate binding site [chemical binding]; other site 382638001021 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 382638001022 pyruvate flavodoxin oxidoreductase subunit delta; Reviewed; Region: porD; PRK09625 382638001023 4Fe-4S binding domain; Region: Fer4; cl02805 382638001024 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 382638001025 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 382638001026 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 382638001027 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 382638001028 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 382638001029 active site 382638001030 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 382638001031 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 382638001032 putative NAD(P) binding site [chemical binding]; other site 382638001033 putative substrate binding site [chemical binding]; other site 382638001034 catalytic Zn binding site [ion binding]; other site 382638001035 structural Zn binding site [ion binding]; other site 382638001036 dimer interface [polypeptide binding]; other site 382638001037 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 382638001038 glucokinase, proteobacterial type; Region: glk; TIGR00749 382638001039 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 382638001040 putative active site [active] 382638001041 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 382638001042 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 382638001043 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 382638001044 Dehydratase family; Region: ILVD_EDD; cl00340 382638001045 6-phosphogluconate dehydratase; Region: edd; TIGR01196 382638001046 Entner-Doudoroff aldolase; Region: eda; TIGR01182 382638001047 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 382638001048 active site 382638001049 intersubunit interface [polypeptide binding]; other site 382638001050 catalytic residue [active] 382638001051 TPR repeat; Region: TPR_11; pfam13414 382638001052 Sel1 repeat; Region: Sel1; cl02723 382638001053 Sel1 repeat; Region: Sel1; cl02723 382638001054 Sel1 repeat; Region: Sel1; cl02723 382638001055 Sel1 repeat; Region: Sel1; cl02723 382638001056 Sel1 repeat; Region: Sel1; cl02723 382638001057 crystallin beta/gamma motif-containing protein; Region: PHA00657 382638001058 Protein of unknown function (DUF3519); Region: DUF3519; pfam12033 382638001059 urease subunit beta; Provisional; Region: ureB; PRK13985 382638001060 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 382638001061 subunit interactions [polypeptide binding]; other site 382638001062 active site 382638001063 flap region; other site 382638001064 urease subunit alpha; Provisional; Region: PRK13986 382638001065 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 382638001066 alpha-gamma subunit interface [polypeptide binding]; other site 382638001067 beta-gamma subunit interface [polypeptide binding]; other site 382638001068 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 382638001069 alpha-beta subunit interface [polypeptide binding]; other site 382638001070 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 382638001071 putative CheA interaction surface; other site 382638001072 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 382638001073 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 382638001074 putative binding surface; other site 382638001075 active site 382638001076 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 382638001077 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 382638001078 ATP binding site [chemical binding]; other site 382638001079 Mg2+ binding site [ion binding]; other site 382638001080 G-X-G motif; other site 382638001081 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 382638001082 Response regulator receiver domain; Region: Response_reg; pfam00072 382638001083 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 382638001084 active site 382638001085 phosphorylation site [posttranslational modification] 382638001086 intermolecular recognition site; other site 382638001087 dimerization interface [polypeptide binding]; other site 382638001088 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 382638001089 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 382638001090 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 382638001091 active site 382638001092 phosphorylation site [posttranslational modification] 382638001093 intermolecular recognition site; other site 382638001094 dimerization interface [polypeptide binding]; other site 382638001095 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 382638001096 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 382638001097 putative active site [active] 382638001098 putative metal binding site [ion binding]; other site 382638001099 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 382638001100 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 382638001101 catalytic residue [active] 382638001102 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 382638001103 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 382638001104 D-3-phosphoglycerate dehydrogenase; Region: PGDH; TIGR01327 382638001105 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638001106 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 382638001107 putative L-serine binding site [chemical binding]; other site 382638001108 ribosomal protein S1; Region: rpsA; TIGR00717 382638001109 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 consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 382638001110 RNA binding site [nucleotide binding]; other site 382638001111 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 382638001112 RNA binding site [nucleotide binding]; other site 382638001113 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 382638001114 RNA binding site [nucleotide binding]; other site 382638001115 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 382638001116 RNA binding site [nucleotide binding]; other site 382638001117 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 382638001118 LytB protein; Region: LYTB; cl00507 382638001119 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 382638001120 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 382638001121 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 382638001122 hinge; other site 382638001123 active site 382638001124 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 382638001125 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 382638001126 putative tRNA-binding site [nucleotide binding]; other site 382638001127 tRNA synthetase B5 domain; Region: B5; cl08394 382638001128 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 382638001129 dimer interface [polypeptide binding]; other site 382638001130 motif 1; other site 382638001131 motif 3; other site 382638001132 motif 2; other site 382638001133 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 382638001134 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 382638001135 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 382638001136 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 382638001137 dimer interface [polypeptide binding]; other site 382638001138 motif 1; other site 382638001139 active site 382638001140 motif 2; other site 382638001141 motif 3; other site 382638001142 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 382638001143 nucleotide binding site/active site [active] 382638001144 HIT family signature motif; other site 382638001145 catalytic residue [active] 382638001146 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 382638001147 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 382638001148 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 382638001149 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 382638001150 catalytic residue [active] 382638001151 Protein of unknown function (DUF3972); Region: DUF3972; pfam13118 382638001152 GMP synthase; Reviewed; Region: guaA; PRK00074 382638001153 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 382638001154 AMP/PPi binding site [chemical binding]; other site 382638001155 candidate oxyanion hole; other site 382638001156 catalytic triad [active] 382638001157 potential glutamine specificity residues [chemical binding]; other site 382638001158 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 382638001159 ATP Binding subdomain [chemical binding]; other site 382638001160 Ligand Binding sites [chemical binding]; other site 382638001161 Dimerization subdomain; other site 382638001162 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 382638001163 Peptidase family M48; Region: Peptidase_M48; cl12018 382638001164 HemK family putative methylases; Region: hemK_fam; TIGR00536 382638001165 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638001166 glutamate dehydrogenase; Provisional; Region: PRK09414 382638001167 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 382638001168 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 382638001169 NAD(P) binding site [chemical binding]; other site 382638001170 Protein of unknown function DUF262; Region: DUF262; cl14890 382638001171 Protein of unknown function DUF262; Region: DUF262; cl14890 382638001172 Glycosyltransferase family 10 (fucosyltransferase); Region: Glyco_transf_10; pfam00852 382638001173 Reovirus sigma C capsid protein; Region: Reo_sigmaC; pfam04582 382638001174 phosphoserine phosphatase SerB; Region: serB; TIGR00338 382638001175 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 382638001176 motif II; other site 382638001177 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 382638001178 Ferritin-like domain; Region: Ferritin; pfam00210 382638001179 ferroxidase diiron center [ion binding]; other site 382638001180 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 382638001181 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 382638001182 SoxW family; SoxW is a bacterial periplasmic TRX, containing a redox active CXXC motif, encoded by a genetic locus (sox operon) involved in thiosulfate oxidation. Sulfur bacteria oxidize sulfur compounds to provide reducing equivalents for carbon dioxide...; Region: SoxW; cd02951 382638001183 catalytic residues [active] 382638001184 ferrochelatase; Region: hemH; TIGR00109 382638001185 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 382638001186 C-terminal domain interface [polypeptide binding]; other site 382638001187 active site 382638001188 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 382638001189 active site 382638001190 N-terminal domain interface [polypeptide binding]; other site 382638001191 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 382638001192 RNA methyltransferase, RsmE family; Region: TIGR00046 382638001193 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638001194 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 382638001195 trimer interface [polypeptide binding]; other site 382638001196 active site 382638001197 acetyl-CoA carboxylase, biotin carboxyl carrier protein; Region: BCCP; TIGR00531 382638001198 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 382638001199 carboxyltransferase (CT) interaction site; other site 382638001200 biotinylation site [posttranslational modification]; other site 382638001201 biotin carboxylase; Validated; Region: PRK08462 382638001202 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 382638001203 ATP-grasp domain; Region: ATP-grasp_4; cl03087 382638001204 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 382638001205 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638001206 Vacuolating cyotoxin; Region: VacA; pfam02691 382638001207 Vacuolating cyotoxin; Region: VacA; pfam02691 382638001208 Vacuolating cyotoxin; Region: VacA; pfam02691 382638001209 Vacuolating cyotoxin; Region: VacA; pfam02691 382638001210 Vacuolating cyotoxin; Region: VacA; pfam02691 382638001211 Vacuolating cyotoxin; Region: VacA; pfam02691 382638001212 Vacuolating cyotoxin; Region: VacA; pfam02691 382638001213 Vacuolating cyotoxin; Region: VacA; pfam02691 382638001214 Vacuolating cyotoxin; Region: VacA; pfam02691 382638001215 Vacuolating cyotoxin; Region: VacA; pfam02691 382638001216 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 382638001217 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 382638001218 inhibitor-cofactor binding pocket; inhibition site 382638001219 pyridoxal 5'-phosphate binding site [chemical binding]; other site 382638001220 catalytic residue [active] 382638001221 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638001222 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 382638001223 Clp amino terminal domain; Region: Clp_N; pfam02861 382638001224 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 382638001225 Walker A motif; other site 382638001226 ATP binding site [chemical binding]; other site 382638001227 Walker B motif; other site 382638001228 arginine finger; other site 382638001229 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 382638001230 Walker A motif; other site 382638001231 ATP binding site [chemical binding]; other site 382638001232 Walker B motif; other site 382638001233 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 382638001234 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 382638001235 Dihydroorotase and related cyclic amidohydrolases [Nucleotide transport and metabolism]; Region: PyrC; COG0044 382638001236 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 382638001237 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 382638001238 active site 382638001239 chlorohydrolase; Provisional; Region: PRK08418 382638001240 Metallo-dependent hydrolases, subgroup D 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_D; cd01312 382638001241 active site 382638001242 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14339 382638001243 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 382638001244 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 382638001245 FeS/SAM binding site; other site 382638001246 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 382638001247 putative acyl-acceptor binding pocket; other site 382638001248 Flagellin N-methylase; Region: FliB; cl00497 382638001249 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; cl09108 382638001250 benzoyl-CoA oxygenase/reductase, BoxA protein; Region: benzo_boxA; TIGR03224 382638001251 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 382638001252 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 382638001253 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 382638001254 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 382638001255 putative active site [active] 382638001256 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 382638001257 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 382638001258 putative acyl-acceptor binding pocket; other site 382638001259 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 382638001260 tRNA-guanine transglycosylases, various specificities; Region: tgt_general; TIGR00449 382638001261 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3400 382638001262 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 382638001263 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 382638001264 active site 382638001265 dimer interface [polypeptide binding]; other site 382638001266 metal binding site [ion binding]; metal-binding site 382638001267 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 382638001268 Mechanosensitive ion channel; Region: MS_channel; pfam00924 382638001269 radical SAM methylthiotransferase, MiaB/RimO family; Region: TIGR00089 382638001270 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 382638001271 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 382638001272 FeS/SAM binding site; other site 382638001273 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 382638001274 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 382638001275 Walker A motif; other site 382638001276 ATP binding site [chemical binding]; other site 382638001277 Walker B motif; other site 382638001278 arginine finger; other site 382638001279 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 382638001280 Vacuolating cyotoxin; Region: VacA; pfam02691 382638001281 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 382638001282 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 382638001283 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 382638001284 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 382638001285 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 382638001286 diaminopimelate decarboxylase; Region: lysA; TIGR01048 382638001287 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 382638001288 active site 382638001289 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 382638001290 substrate binding site [chemical binding]; other site 382638001291 catalytic residues [active] 382638001292 dimer interface [polypeptide binding]; other site 382638001293 Chorismate mutase type II; Region: CM_2; cl00693 382638001294 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 382638001295 aminodeoxychorismate synthase; Provisional; Region: PRK07508 382638001296 chorismate binding enzyme; Region: Chorismate_bind; cl10555 382638001297 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 382638001298 substrate-cofactor binding pocket; other site 382638001299 pyridoxal 5'-phosphate binding site [chemical binding]; other site 382638001300 catalytic residue [active] 382638001301 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 382638001302 multimer interface [polypeptide binding]; other site 382638001303 active site 382638001304 catalytic triad [active] 382638001305 dimer interface [polypeptide binding]; other site 382638001306 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK08412 382638001307 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 382638001308 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 382638001309 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 382638001310 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 382638001311 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 382638001312 peptide binding site [polypeptide binding]; other site 382638001313 dipeptide transporter permease DppB; Provisional; Region: PRK10914 382638001314 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 382638001315 dimer interface [polypeptide binding]; other site 382638001316 conserved gate region; other site 382638001317 putative PBP binding loops; other site 382638001318 ABC-ATPase subunit interface; other site 382638001319 dipeptide transporter; Provisional; Region: PRK10913 382638001320 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 382638001321 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 382638001322 dimer interface [polypeptide binding]; other site 382638001323 conserved gate region; other site 382638001324 putative PBP binding loops; other site 382638001325 ABC-ATPase subunit interface; other site 382638001326 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 382638001327 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 382638001328 Walker A/P-loop; other site 382638001329 ATP binding site [chemical binding]; other site 382638001330 Q-loop/lid; other site 382638001331 ABC transporter signature motif; other site 382638001332 Walker B; other site 382638001333 D-loop; other site 382638001334 H-loop/switch region; other site 382638001335 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 382638001336 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 382638001337 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 382638001338 Walker A/P-loop; other site 382638001339 ATP binding site [chemical binding]; other site 382638001340 Q-loop/lid; other site 382638001341 ABC transporter signature motif; other site 382638001342 Walker B; other site 382638001343 D-loop; other site 382638001344 H-loop/switch region; other site 382638001345 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 382638001346 Obg family GTPase CgtA; Region: Obg_CgtA; TIGR02729 382638001347 GTP1/OBG; Region: GTP1_OBG; pfam01018 382638001348 Obg GTPase; Region: Obg; cd01898 382638001349 G1 box; other site 382638001350 GTP/Mg2+ binding site [chemical binding]; other site 382638001351 Switch I region; other site 382638001352 G2 box; other site 382638001353 G3 box; other site 382638001354 Switch II region; other site 382638001355 G4 box; other site 382638001356 G5 box; other site 382638001357 Alginate Lyase A1-III; enzymatically depolymerizes alginate, a complex copolymer of beta-D-mannuronate and alpha-L-guluronate, by cleaving the beta-(1,4) glycosidic bond; Region: AlgLyase; cl00179 382638001358 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 382638001359 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 382638001360 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 382638001361 AAA domain; Region: AAA_13; pfam13166 382638001362 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 382638001363 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 382638001364 putative active site [active] 382638001365 substrate binding site [chemical binding]; other site 382638001366 putative cosubstrate binding site; other site 382638001367 catalytic site [active] 382638001368 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 382638001369 substrate binding site [chemical binding]; other site 382638001370 biotin--protein ligase; Provisional; Region: PRK08477 382638001371 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 382638001372 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 382638001373 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 382638001374 P-loop; other site 382638001375 Magnesium ion binding site [ion binding]; other site 382638001376 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 382638001377 Magnesium ion binding site [ion binding]; other site 382638001378 ParB-like partition proteins; Region: parB_part; TIGR00180 382638001379 ParB-like nuclease domain; Region: ParBc; cl02129 382638001380 Plant ATP synthase F0; Region: YMF19; cl07975 382638001381 Plant ATP synthase F0; Region: YMF19; cl07975 382638001382 Plant ATP synthase F0; Region: YMF19; cl07975 382638001383 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 382638001384 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 382638001385 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 382638001386 beta subunit interaction interface [polypeptide binding]; other site 382638001387 Walker A motif; other site 382638001388 ATP binding site [chemical binding]; other site 382638001389 Walker B motif; other site 382638001390 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 382638001391 ATP synthase; Region: ATP-synt; cl00365 382638001392 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 382638001393 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 382638001394 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 382638001395 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 382638001396 alpha subunit interaction interface [polypeptide binding]; other site 382638001397 Walker A motif; other site 382638001398 ATP binding site [chemical binding]; other site 382638001399 Walker B motif; other site 382638001400 inhibitor binding site; inhibition site 382638001401 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 382638001402 ATP synthase, F1 epsilon subunit (delta in mitochondria); Region: ATP_synt_epsi; TIGR01216 382638001403 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 382638001404 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 382638001405 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 382638001406 Gram-negative bacterial tonB protein; Region: TonB; cl10048 382638001407 translocation protein TolB; Provisional; Region: tolB; PRK04043 382638001408 TolB amino-terminal domain; Region: TolB_N; cl00639 382638001409 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 382638001410 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 382638001411 ligand binding site [chemical binding]; other site 382638001412 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 382638001413 Tetratricopeptide repeat; Region: TPR_16; pfam13432 382638001414 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 382638001415 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 382638001416 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 382638001417 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 382638001418 cofactor binding site; other site 382638001419 DNA binding site [nucleotide binding] 382638001420 substrate interaction site [chemical binding]; other site 382638001421 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08471 382638001422 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 382638001423 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 382638001424 gamma-glutamyltranspeptidase; Region: g_glut_trans; TIGR00066 382638001425 Sel1 repeat; Region: Sel1; cl02723 382638001426 Sel1 repeat; Region: Sel1; cl02723 382638001427 Sel1 repeat; Region: Sel1; cl02723 382638001428 Sel1 repeat; Region: Sel1; cl02723 382638001429 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 382638001430 Mechanosensitive ion channel; Region: MS_channel; pfam00924 382638001431 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 382638001432 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 382638001433 S-adenosylmethionine binding site [chemical binding]; other site 382638001434 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 382638001435 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 382638001436 active site 382638001437 HIGH motif; other site 382638001438 KMSKS motif; other site 382638001439 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 382638001440 tRNA binding surface [nucleotide binding]; other site 382638001441 anticodon binding site; other site 382638001442 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 382638001443 dimer interface [polypeptide binding]; other site 382638001444 putative tRNA-binding site [nucleotide binding]; other site 382638001445 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 382638001446 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 382638001447 S-adenosylmethionine binding site [chemical binding]; other site 382638001448 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 382638001449 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 382638001450 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1; Region: GT1_UGDG_like; cd03817 382638001451 putative ADP-binding pocket [chemical binding]; other site 382638001452 arginine decarboxylase, biosynthetic; Region: speA; TIGR01273 382638001453 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 382638001454 active site 382638001455 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 382638001456 catalytic residues [active] 382638001457 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 382638001458 Protein of unknown function DUF262; Region: DUF262; cl14890 382638001459 Protein of unknown function DUF262; Region: DUF262; cl14890 382638001460 Mechanosensitive ion channel; Region: MS_channel; pfam00924 382638001461 Protein of unknown function DUF262; Region: DUF262; cl14890 382638001462 Protein of unknown function DUF262; Region: DUF262; cl14890 382638001463 Protein of unknown function DUF262; Region: DUF262; cl14890 382638001464 cell division protein FtsZ; Validated; Region: PRK09330 382638001465 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 382638001466 nucleotide binding site [chemical binding]; other site 382638001467 SulA interaction site; other site 382638001468 cell division protein FtsA; Region: ftsA; TIGR01174 382638001469 Cell division protein FtsA; Region: FtsA; cl11496 382638001470 Cell division protein FtsA; Region: FtsA; cl11496 382638001471 SurA N-terminal domain; Region: SurA_N_3; cl07813 382638001472 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 382638001473 PPIC-type PPIASE domain; Region: Rotamase; cl08278 382638001474 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 382638001475 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 382638001476 inhibitor-cofactor binding pocket; inhibition site 382638001477 pyridoxal 5'-phosphate binding site [chemical binding]; other site 382638001478 catalytic residue [active] 382638001479 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 382638001480 putative nucleotide binding site [chemical binding]; other site 382638001481 uridine monophosphate binding site [chemical binding]; other site 382638001482 homohexameric interface [polypeptide binding]; other site 382638001483 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 382638001484 (p)ppGpp synthetase, RelA/SpoT family; Region: spoT_relA; TIGR00691 382638001485 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 382638001486 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 382638001487 synthetase active site [active] 382638001488 NTP binding site [chemical binding]; other site 382638001489 metal binding site [ion binding]; metal-binding site 382638001490 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 382638001491 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 382638001492 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 382638001493 active site 382638001494 HIGH motif; other site 382638001495 dimer interface [polypeptide binding]; other site 382638001496 KMSKS motif; other site 382638001497 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 382638001498 RNA binding surface [nucleotide binding]; other site 382638001499 Nitronate monooxygenase; Region: NMO; pfam03060 382638001500 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 382638001501 FMN binding site [chemical binding]; other site 382638001502 substrate binding site [chemical binding]; other site 382638001503 putative catalytic residue [active] 382638001504 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 382638001505 active site 382638001506 metal binding site [ion binding]; metal-binding site 382638001507 NMT1-like family; Region: NMT1_2; cl15260 382638001508 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG1427 382638001509 aconitate hydratase 2; Region: acnB; TIGR00117 382638001510 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 382638001511 substrate binding site [chemical binding]; other site 382638001512 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 382638001513 substrate binding site [chemical binding]; other site 382638001514 ligand binding site [chemical binding]; other site 382638001515 flagellar biosynthetic protein FlhB; Region: flhB; TIGR00328 382638001516 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 382638001517 Z1 domain; Region: Z1; pfam10593 382638001518 Flagellin N-methylase; Region: FliB; cl00497 382638001519 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 382638001520 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 382638001521 P loop; other site 382638001522 GTP binding site [chemical binding]; other site 382638001523 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 382638001524 phosphodiesterase; Provisional; Region: PRK12704 382638001525 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 382638001526 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 382638001527 Zn2+ binding site [ion binding]; other site 382638001528 Mg2+ binding site [ion binding]; other site 382638001529 putative efflux protein, MATE family; Region: matE; TIGR00797 382638001530 MatE; Region: MatE; cl10513 382638001531 MatE; Region: MatE; cl10513 382638001532 Predicted permease [General function prediction only]; Region: COG2056 382638001533 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 382638001534 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 382638001535 N-carbamolyputrescine amidase; Region: PLN02747 382638001536 putative active site; other site 382638001537 catalytic triad [active] 382638001538 putative dimer interface [polypeptide binding]; other site 382638001539 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 382638001540 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 382638001541 putative ATP binding site [chemical binding]; other site 382638001542 putative substrate interface [chemical binding]; other site 382638001543 Flagellar protein FliS; Region: FliS; cl00654 382638001544 flagellar capping protein; Validated; Region: fliD; PRK08453 382638001545 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 382638001546 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 382638001547 FlaG protein; Region: FlaG; cl00591 382638001548 Peptidase family M23; Region: Peptidase_M23; pfam01551 382638001549 FtsX-like permease family; Region: FtsX; cl15850 382638001550 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 382638001551 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 382638001552 Walker A/P-loop; other site 382638001553 ATP binding site [chemical binding]; other site 382638001554 Q-loop/lid; other site 382638001555 ABC transporter signature motif; other site 382638001556 Walker B; other site 382638001557 D-loop; other site 382638001558 H-loop/switch region; other site 382638001559 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 382638001560 S-adenosylmethionine binding site [chemical binding]; other site 382638001561 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 382638001562 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 382638001563 Interdomain contacts; other site 382638001564 Cytokine receptor motif; other site 382638001565 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 382638001566 Interdomain contacts; other site 382638001567 Cytokine receptor motif; other site 382638001568 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 382638001569 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 382638001570 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 382638001571 active site 382638001572 Predicted GTPase [General function prediction only]; Region: COG3596 382638001573 Domain of unknown function (DUF697); Region: DUF697; cl12064 382638001574 Domain of unknown function (DUF697); Region: DUF697; cl12064 382638001575 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 382638001576 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 382638001577 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 382638001578 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 382638001579 active site 382638001580 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 382638001581 nucleotide binding site/active site [active] 382638001582 HIT family signature motif; other site 382638001583 catalytic residue [active] 382638001584 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 382638001585 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 382638001586 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 382638001587 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 382638001588 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 382638001589 ATP-grasp domain; Region: ATP-grasp_4; cl03087 382638001590 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 382638001591 tetramer interfaces [polypeptide binding]; other site 382638001592 binuclear metal-binding site [ion binding]; other site 382638001593 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 382638001594 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 382638001595 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 382638001596 catalytic residue [active] 382638001597 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 382638001598 active site 382638001599 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 382638001600 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 382638001601 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 382638001602 FeS/SAM binding site; other site 382638001603 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 382638001604 G3 box; other site 382638001605 Switch II region; other site 382638001606 G4 box; other site 382638001607 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 382638001608 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 382638001609 Ligand Binding Site [chemical binding]; other site 382638001610 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638001611 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 382638001612 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 382638001613 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 382638001614 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 382638001615 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 382638001616 ATP-grasp domain; Region: ATP-grasp_4; cl03087 382638001617 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 382638001618 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; smart01096 382638001619 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 382638001620 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 382638001621 ATP-grasp domain; Region: ATP-grasp_4; cl03087 382638001622 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 382638001623 IMP binding site; other site 382638001624 dimer interface [polypeptide binding]; other site 382638001625 interdomain contacts; other site 382638001626 partial ornithine binding site; other site 382638001627 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 382638001628 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 382638001629 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; cl00284 382638001630 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; cl00284 382638001631 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 382638001632 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 382638001633 putative heme binding pocket [chemical binding]; other site 382638001634 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 382638001635 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 382638001636 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638001637 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638001638 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 382638001639 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 382638001640 ATP binding site [chemical binding]; other site 382638001641 putative Mg++ binding site [ion binding]; other site 382638001642 Uncharacterized conserved protein [Function unknown]; Region: COG1565 382638001643 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 382638001644 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 382638001645 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 382638001646 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 382638001647 flagellar motor protein MotB; Reviewed; Region: motB; PRK08457 382638001648 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 382638001649 ligand binding site [chemical binding]; other site 382638001650 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 382638001651 dimer interface [polypeptide binding]; other site 382638001652 conserved gate region; other site 382638001653 ABC-ATPase subunit interface; other site 382638001654 NMT1-like family; Region: NMT1_2; cl15260 382638001655 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 382638001656 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 382638001657 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 382638001658 Walker A/P-loop; other site 382638001659 ATP binding site [chemical binding]; other site 382638001660 Q-loop/lid; other site 382638001661 ABC transporter signature motif; other site 382638001662 Walker B; other site 382638001663 D-loop; other site 382638001664 H-loop/switch region; other site 382638001665 excinuclease ABC, C subunit; Region: uvrC; TIGR00194 382638001666 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 382638001667 GIY-YIG motif/motif A; other site 382638001668 active site 382638001669 catalytic site [active] 382638001670 putative DNA binding site [nucleotide binding]; other site 382638001671 metal binding site [ion binding]; metal-binding site 382638001672 UvrB/uvrC motif; Region: UVR; pfam02151 382638001673 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 382638001674 homoserine dehydrogenase; Provisional; Region: PRK06349 382638001675 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638001676 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 382638001677 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 382638001678 Restriction endonuclease; Region: Mrr_cat; cl00516 382638001679 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 382638001680 catalytic residues [active] 382638001681 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 382638001682 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638001683 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 382638001684 Protein of unknown function DUF262; Region: DUF262; cl14890 382638001685 Protein of unknown function DUF262; Region: DUF262; cl14890 382638001686 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 382638001687 Sel1 repeat; Region: Sel1; cl02723 382638001688 Sel1 repeat; Region: Sel1; cl02723 382638001689 Sel1 repeat; Region: Sel1; cl02723 382638001690 Sel1 repeat; Region: Sel1; cl02723 382638001691 Tetrahydrodipicolinate N-succinyltransferase [Amino acid transport and metabolism]; Region: DapD; COG2171 382638001692 Putative 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (THP succinyltransferase), C-terminal left-handed parallel alpha-helix (LbH) domain: This group is composed of mostly uncharacterized proteins containing an N-terminal...; Region: LbH_THP_succinylT_putative; cd04649 382638001693 putative trimer interface [polypeptide binding]; other site 382638001694 putative CoA binding site [chemical binding]; other site 382638001695 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 382638001696 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 382638001697 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 382638001698 succinyldiaminopimelate transaminase; Region: DapC_gpp; TIGR03538 382638001699 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 382638001700 pyridoxal 5'-phosphate binding site [chemical binding]; other site 382638001701 homodimer interface [polypeptide binding]; other site 382638001702 catalytic residue [active] 382638001703 UDP-N-acetylmuramate--alanine ligase; Region: murC; TIGR01082 382638001704 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 382638001705 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 382638001706 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 382638001707 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 382638001708 Walker A/P-loop; other site 382638001709 ATP binding site [chemical binding]; other site 382638001710 Q-loop/lid; other site 382638001711 ABC transporter signature motif; other site 382638001712 Walker B; other site 382638001713 D-loop; other site 382638001714 H-loop/switch region; other site 382638001715 Smr domain; Region: Smr; cl02619 382638001716 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; cd06532 382638001717 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 382638001718 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 382638001719 hydrogenase (NiFe) small subunit (hydA); Region: hydA; TIGR00391 382638001720 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 382638001721 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 382638001722 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 382638001723 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 382638001724 nickel binding site [ion binding]; other site 382638001725 putative substrate-binding site; other site 382638001726 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 382638001727 Transposase IS200 like; Region: Y1_Tnp; cl00848 382638001728 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 382638001729 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 382638001730 Probable transposase; Region: OrfB_IS605; pfam01385 382638001731 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 382638001732 Transposase IS200 like; Region: Y1_Tnp; cl00848 382638001733 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 382638001734 putative substrate translocation pore; other site 382638001735 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 382638001736 Ligand Binding Site [chemical binding]; other site 382638001737 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 382638001738 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 382638001739 active site 382638001740 NTP binding site [chemical binding]; other site 382638001741 metal binding triad [ion binding]; metal-binding site 382638001742 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 382638001743 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 382638001744 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 382638001745 FMN binding site [chemical binding]; other site 382638001746 active site 382638001747 catalytic residues [active] 382638001748 substrate binding site [chemical binding]; other site 382638001749 LysE type translocator; Region: LysE; cl00565 382638001750 Protein of unknown function (DUF1104); Region: DUF1104; pfam06518 382638001751 Protein of unknown function (DUF1104); Region: DUF1104; pfam06518 382638001752 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 382638001753 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 382638001754 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK08439 382638001755 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 382638001756 dimer interface [polypeptide binding]; other site 382638001757 active site 382638001758 Phosphopantetheine attachment site; Region: PP-binding; cl09936 382638001759 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 382638001760 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638001761 NAD(P) binding site [chemical binding]; other site 382638001762 active site 382638001763 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 382638001764 Protein of unknown function, DUF417; Region: DUF417; cl01162 382638001765 diaminopimelate epimerase; Region: DapF; TIGR00652 382638001766 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 382638001767 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 382638001768 Domain of unknown function DUF20; Region: UPF0118; pfam01594 382638001769 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 382638001770 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 382638001771 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 382638001772 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 382638001773 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 382638001774 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 382638001775 putative substrate translocation pore; other site 382638001776 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 382638001777 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 382638001778 active site 382638001779 metal binding site [ion binding]; metal-binding site 382638001780 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 382638001781 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 382638001782 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 382638001783 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 382638001784 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 382638001785 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 382638001786 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 382638001787 transketolase, bacterial and yeast; Region: tktlase_bact; TIGR00232 382638001788 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 382638001789 TPP-binding site [chemical binding]; other site 382638001790 dimer interface [polypeptide binding]; other site 382638001791 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 382638001792 PYR/PP interface [polypeptide binding]; other site 382638001793 dimer interface [polypeptide binding]; other site 382638001794 TPP binding site [chemical binding]; other site 382638001795 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 382638001796 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 382638001797 riboflavin kinase/FMN adenylyltransferase; Region: ribF; TIGR00083 382638001798 active site 382638001799 Riboflavin kinase; Region: Flavokinase; cl03312 382638001800 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 382638001801 hemolysin TlyA family protein; Region: tly; TIGR00478 382638001802 RNA binding surface [nucleotide binding]; other site 382638001803 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; cl15754 382638001804 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 382638001805 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 382638001806 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638001807 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 382638001808 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 382638001809 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 382638001810 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 382638001811 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 382638001812 Walker A/P-loop; other site 382638001813 ATP binding site [chemical binding]; other site 382638001814 Q-loop/lid; other site 382638001815 ABC transporter signature motif; other site 382638001816 Walker B; other site 382638001817 D-loop; other site 382638001818 H-loop/switch region; other site 382638001819 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 382638001820 Restriction endonuclease; Region: Mrr_cat; cl00516 382638001821 Cation transport protein; Region: TrkH; cl10514 382638001822 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 382638001823 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638001824 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 382638001825 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 382638001826 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 382638001827 phospho-N-acetylmuramoyl-pentapeptide-transferase; Region: mraY; TIGR00445 382638001828 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 382638001829 Mg++ binding site [ion binding]; other site 382638001830 putative catalytic motif [active] 382638001831 putative substrate binding site [chemical binding]; other site 382638001832 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03815 382638001833 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 382638001834 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 382638001835 Protein of unknown function (DUF493); Region: DUF493; cl01102 382638001836 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 382638001837 active site 382638001838 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 382638001839 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 382638001840 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 382638001841 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cl00248 382638001842 substrate binding site [chemical binding]; other site 382638001843 dimerization interface [polypeptide binding]; other site 382638001844 active site 382638001845 calcium binding site [ion binding]; other site 382638001846 DNA polymerase III, beta subunit; Region: dnan; TIGR00663 382638001847 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 382638001848 putative DNA binding surface [nucleotide binding]; other site 382638001849 dimer interface [polypeptide binding]; other site 382638001850 beta-clamp/translesion DNA polymerase binding surface; other site 382638001851 beta-clamp/clamp loader binding surface; other site 382638001852 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 382638001853 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 382638001854 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 382638001855 anchoring element; other site 382638001856 dimer interface [polypeptide binding]; other site 382638001857 ATP binding site [chemical binding]; other site 382638001858 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 382638001859 active site 382638001860 putative metal-binding site [ion binding]; other site 382638001861 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 382638001862 R.Pab1 restriction endonuclease; Region: RE_R_Pab1; pfam09522 382638001863 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 382638001864 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638001865 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 382638001866 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 382638001867 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 382638001868 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 382638001869 nucleotide binding pocket [chemical binding]; other site 382638001870 K-X-D-G motif; other site 382638001871 catalytic site [active] 382638001872 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 382638001873 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 382638001874 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cd00027 382638001875 Dimer interface [polypeptide binding]; other site 382638001876 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 382638001877 Response regulator receiver domain; Region: Response_reg; pfam00072 382638001878 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 382638001879 active site 382638001880 phosphorylation site [posttranslational modification] 382638001881 intermolecular recognition site; other site 382638001882 dimerization interface [polypeptide binding]; other site 382638001883 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 382638001884 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 382638001885 dimer interface [polypeptide binding]; other site 382638001886 anticodon binding site; other site 382638001887 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 the...; Region: AspRS_core; cd00777 382638001888 homodimer interface [polypeptide binding]; other site 382638001889 motif 1; other site 382638001890 active site 382638001891 motif 2; other site 382638001892 GAD domain; Region: GAD; pfam02938 382638001893 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 attaches...; Region: class_II_aaRS-like_core; cl00268 382638001894 active site 382638001895 motif 3; other site 382638001896 adenylate kinase; Reviewed; Region: adk; PRK00279 382638001897 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 382638001898 AMP-binding site [chemical binding]; other site 382638001899 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 382638001900 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; cd06532 382638001901 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 382638001902 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 382638001903 dimer interface [polypeptide binding]; other site 382638001904 substrate binding site [chemical binding]; other site 382638001905 metal binding sites [ion binding]; metal-binding site 382638001906 hypothetical protein; Provisional; Region: PRK08444 382638001907 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 382638001908 FeS/SAM binding site; other site 382638001909 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 382638001910 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 382638001911 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 382638001912 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 382638001913 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 382638001914 Surface antigen; Region: Bac_surface_Ag; cl03097 382638001915 hypothetical protein; Provisional; Region: PRK08445 382638001916 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 382638001917 FeS/SAM binding site; other site 382638001918 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 382638001919 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 382638001920 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 382638001921 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 382638001922 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 382638001923 GatB domain; Region: GatB_Yqey; cl11497 382638001924 SurA N-terminal domain; Region: SurA_N_3; cl07813 382638001925 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]; Region: COG2956 382638001926 Predicted nucleic acid-binding protein, consists of a PIN domain and a Zn-ribbon module [General function prediction only]; Region: COG1439 382638001927 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 382638001928 RNA/DNA hybrid binding site [nucleotide binding]; other site 382638001929 active site 382638001930 ribonuclease III; Reviewed; Region: rnc; PRK00102 382638001931 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 382638001932 dimerization interface [polypeptide binding]; other site 382638001933 active site 382638001934 metal binding site [ion binding]; metal-binding site 382638001935 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 382638001936 dsRNA binding site [nucleotide binding]; other site 382638001937 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 382638001938 Tetramer interface [polypeptide binding]; other site 382638001939 active site 382638001940 FMN-binding site [chemical binding]; other site 382638001941 Protein of unknown function (DUF2603); Region: DUF2603; pfam10788 382638001942 oxygen-independent coproporphyrinogen III oxidase; Region: hemN; TIGR00538 382638001943 HemN C-terminal domain; Region: HemN_C; pfam06969 382638001944 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 382638001945 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 382638001946 Cysteine-rich domain; Region: CCG; pfam02754 382638001947 Cysteine-rich domain; Region: CCG; pfam02754 382638001948 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 382638001949 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 382638001950 aspartate aminotransferase; Provisional; Region: PRK05764 382638001951 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 382638001952 pyridoxal 5'-phosphate binding site [chemical binding]; other site 382638001953 homodimer interface [polypeptide binding]; other site 382638001954 catalytic residue [active] 382638001955 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 382638001956 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 382638001957 DNA binding site [nucleotide binding] 382638001958 Int/Topo IB signature motif; other site 382638001959 active site 382638001960 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 382638001961 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 382638001962 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 382638001963 DNA binding site [nucleotide binding] 382638001964 active site 382638001965 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 382638001966 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638001967 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 382638001968 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08447 382638001969 ATP cone domain; Region: ATP-cone; pfam03477 382638001970 Class I ribonucleotide reductase; Region: RNR_I; cd01679 382638001971 active site 382638001972 dimer interface [polypeptide binding]; other site 382638001973 catalytic residues [active] 382638001974 effector binding site; other site 382638001975 R2 peptide binding site; other site 382638001976 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14359 382638001977 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 382638001978 Substrate binding site; other site 382638001979 Mg++ binding site; other site 382638001980 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 382638001981 active site 382638001982 substrate binding site [chemical binding]; other site 382638001983 CoA binding site [chemical binding]; other site 382638001984 FliP family; Region: FliP; cl00593 382638001985 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 382638001986 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 382638001987 N-terminal plug; other site 382638001988 ligand-binding site [chemical binding]; other site 382638001989 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 382638001990 ferrous iron transporter FeoB; Region: feoB; TIGR00437 382638001991 G1 box; other site 382638001992 GTP/Mg2+ binding site [chemical binding]; other site 382638001993 Switch I region; other site 382638001994 G2 box; other site 382638001995 G3 box; other site 382638001996 Switch II region; other site 382638001997 G4 box; other site 382638001998 G5 box; other site 382638001999 Nucleoside recognition; Region: Gate; cl00486 382638002000 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 382638002001 Nucleoside recognition; Region: Gate; cl00486 382638002002 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 382638002003 active site 382638002004 catalytic site [active] 382638002005 substrate binding site [chemical binding]; other site 382638002006 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 382638002007 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 382638002008 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 382638002009 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 382638002010 Predicted methyltransferases [General function prediction only]; Region: COG0313 382638002011 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 382638002012 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 382638002013 transcription termination factor Rho; Provisional; Region: rho; PRK09376 382638002014 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 382638002015 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 382638002016 RNA binding site [nucleotide binding]; other site 382638002017 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 382638002018 multimer interface [polypeptide binding]; other site 382638002019 Walker A motif; other site 382638002020 ATP binding site [chemical binding]; other site 382638002021 Walker B motif; other site 382638002022 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 382638002023 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 382638002024 Sel1 repeat; Region: Sel1; cl02723 382638002025 glutamine synthetase, type I; Region: GlnA; TIGR00653 382638002026 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 382638002027 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 382638002028 Protein of unknown function DUF262; Region: DUF262; cl14890 382638002029 Protein of unknown function DUF262; Region: DUF262; cl14890 382638002030 Uncharacterized conserved protein [Function unknown]; Region: COG3586 382638002031 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 382638002032 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 382638002033 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 382638002034 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 382638002035 active site 382638002036 HslU subunit interaction site [polypeptide binding]; other site 382638002037 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 382638002038 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 382638002039 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 382638002040 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 382638002041 GTPase Era; Reviewed; Region: era; PRK00089 382638002042 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 382638002043 G1 box; other site 382638002044 GTP/Mg2+ binding site [chemical binding]; other site 382638002045 Switch I region; other site 382638002046 G2 box; other site 382638002047 Switch II region; other site 382638002048 G3 box; other site 382638002049 G4 box; other site 382638002050 G5 box; other site 382638002051 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 382638002052 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 382638002053 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 382638002054 dihydrodipicolinate reductase; Region: dapB; TIGR00036 382638002055 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638002056 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 382638002057 FAD binding domain; Region: FAD_binding_4; pfam01565 382638002058 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 382638002059 Protein-interacting Bro1-like domain of mammalian Alix and related domains; Region: BRO1_Alix_like; cl14649 382638002060 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 382638002061 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 382638002062 dimer interface [polypeptide binding]; other site 382638002063 ADP-ribose binding site [chemical binding]; other site 382638002064 active site 382638002065 nudix motif; other site 382638002066 metal binding site [ion binding]; metal-binding site 382638002067 Peptidase family M23; Region: Peptidase_M23; pfam01551 382638002068 DDE superfamily endonuclease; Region: DDE_5; cl02413 382638002069 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 382638002070 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 382638002071 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 382638002072 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 382638002073 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 382638002074 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 382638002075 nucleotide binding region [chemical binding]; other site 382638002076 ATP-binding site [chemical binding]; other site 382638002077 SEC-C motif; Region: SEC-C; pfam02810 382638002078 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 382638002079 FtsX-like permease family; Region: FtsX; cl15850 382638002080 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 382638002081 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 382638002082 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 382638002083 metal-binding site [ion binding] 382638002084 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 382638002085 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 382638002086 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 382638002087 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 382638002088 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 382638002089 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 382638002090 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 382638002091 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 382638002092 active site 382638002093 catalytic residues [active] 382638002094 metal binding site [ion binding]; metal-binding site 382638002095 Clp protease; Region: CLP_protease; pfam00574 382638002096 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 382638002097 oligomer interface [polypeptide binding]; other site 382638002098 active site residues [active] 382638002099 trigger factor; Provisional; Region: tig; PRK01490 382638002100 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 382638002101 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 382638002102 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 382638002103 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 382638002104 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 382638002105 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 382638002106 dimerization interface [polypeptide binding]; other site 382638002107 active site 382638002108 Domain of unknown function (DUF3943); Region: DUF3943; pfam13084 382638002109 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09314 382638002110 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 382638002111 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; cl00522 382638002112 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; cd06532 382638002113 Protein of unknown function DUF45; Region: DUF45; cl00636 382638002114 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 382638002115 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 382638002116 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 382638002117 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 382638002118 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 382638002119 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 382638002120 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638002121 Uncharacterized conserved protein [Function unknown]; Region: COG1912 382638002122 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 382638002123 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 382638002124 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 382638002125 Fic/DOC family; Region: Fic; cl00960 382638002126 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 382638002127 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 382638002128 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 382638002129 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 382638002130 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 382638002131 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 382638002132 Walker A/P-loop; other site 382638002133 ATP binding site [chemical binding]; other site 382638002134 Q-loop/lid; other site 382638002135 ABC transporter signature motif; other site 382638002136 Walker B; other site 382638002137 D-loop; other site 382638002138 H-loop/switch region; other site 382638002139 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 382638002140 DNA polymerase III subunits gamma and tau; Validated; Region: PRK08451 382638002141 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 382638002142 Walker A motif; other site 382638002143 ATP binding site [chemical binding]; other site 382638002144 Walker B motif; other site 382638002145 arginine finger; other site 382638002146 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 382638002147 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 382638002148 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 382638002149 active site 382638002150 homotetramer interface [polypeptide binding]; other site 382638002151 homodimer interface [polypeptide binding]; other site 382638002152 Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcxC; COG4647 382638002153 Acetone carboxylase gamma subunit; Region: Acetone_carb_G; pfam08882 382638002154 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 382638002155 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 382638002156 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 382638002157 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 382638002158 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; cl01409 382638002159 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 382638002160 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 382638002161 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 382638002162 putative acyltransferase; Provisional; Region: PRK05790 382638002163 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 382638002164 dimer interface [polypeptide binding]; other site 382638002165 active site 382638002166 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 382638002167 DNA gyrase subunit A; Validated; Region: PRK05560 382638002168 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 in DNA...; Region: TOP4c; cd00187 382638002169 CAP-like domain; other site 382638002170 active site 382638002171 primary dimer interface [polypeptide binding]; other site 382638002172 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 382638002173 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 382638002174 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 382638002175 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 382638002176 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 382638002177 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 382638002178 Response regulator receiver domain; Region: Response_reg; pfam00072 382638002179 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 382638002180 active site 382638002181 phosphorylation site [posttranslational modification] 382638002182 intermolecular recognition site; other site 382638002183 dimerization interface [polypeptide binding]; other site 382638002184 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 382638002185 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 382638002186 Walker A motif; other site 382638002187 ATP binding site [chemical binding]; other site 382638002188 Walker B motif; other site 382638002189 arginine finger; other site 382638002190 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; cl15754 382638002191 cofactor binding site; other site 382638002192 DNA binding site [nucleotide binding] 382638002193 substrate interaction site [chemical binding]; other site 382638002194 GTP-binding protein LepA; Provisional; Region: PRK05433 382638002195 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 382638002196 G1 box; other site 382638002197 putative GEF interaction site [polypeptide binding]; other site 382638002198 GTP/Mg2+ binding site [chemical binding]; other site 382638002199 Switch I region; other site 382638002200 G2 box; other site 382638002201 G3 box; other site 382638002202 Switch II region; other site 382638002203 G4 box; other site 382638002204 G5 box; other site 382638002205 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 382638002206 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 382638002207 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 382638002208 1-deoxy-D-xylulose-5-phosphate synthase; Region: dxs; TIGR00204 382638002209 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 382638002210 TPP-binding site; other site 382638002211 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 382638002212 PYR/PP interface [polypeptide binding]; other site 382638002213 dimer interface [polypeptide binding]; other site 382638002214 TPP binding site [chemical binding]; other site 382638002215 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 382638002216 flagellar assembly protein H; Validated; Region: fliH; PRK06669 382638002217 Flagellar assembly protein FliH; Region: FliH; pfam02108 382638002218 flagellar motor switch protein FliG; Region: fliG; TIGR00207 382638002219 FliG C-terminal domain; Region: FliG_C; pfam01706 382638002220 flagellar basal-body M-ring protein/flagellar hook-basal body protein (fliF); Region: fliF; TIGR00206 382638002221 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 382638002222 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 382638002223 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 382638002224 CTP synthetase; Validated; Region: pyrG; PRK05380 382638002225 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 382638002226 Catalytic site [active] 382638002227 active site 382638002228 UTP binding site [chemical binding]; other site 382638002229 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 382638002230 active site 382638002231 putative oxyanion hole; other site 382638002232 catalytic triad [active] 382638002233 DHH family; Region: DHH; pfam01368 382638002234 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 382638002235 DHHA1 domain; Region: DHHA1; pfam02272 382638002236 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 382638002237 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 382638002238 active site 382638002239 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 382638002240 Sel1 repeat; Region: Sel1; cl02723 382638002241 Sel1 repeat; Region: Sel1; cl02723 382638002242 Sel1 repeat; Region: Sel1; cl02723 382638002243 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 includes...; Region: RuvC_resolvase; cl00243 382638002244 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 382638002245 Septum formation topological specificity factor MinE; Region: MinE; cl00538 382638002246 septum site-determining protein MinD; Region: minD_bact; TIGR01968 382638002247 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 382638002248 Switch I; other site 382638002249 Switch II; other site 382638002250 ketol-acid reductoisomerase; Provisional; Region: PRK05479 382638002251 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638002252 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 382638002253 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 382638002254 NAD synthase; Region: NAD_synthase; pfam02540 382638002255 homodimer interface [polypeptide binding]; other site 382638002256 NAD binding pocket [chemical binding]; other site 382638002257 ATP binding pocket [chemical binding]; other site 382638002258 Mg binding site [ion binding]; other site 382638002259 active-site loop [active] 382638002260 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 382638002261 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 382638002262 pseudaminic acid biosynthesis N-acetyl transferase; Region: PseH; TIGR03585 382638002263 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 382638002264 Spore coat polysaccharide biosynthesis protein, predicted glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: spsG; COG3980 382638002265 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 382638002266 ligand binding site; other site 382638002267 tetramer interface; other site 382638002268 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 382638002269 Flagellar L-ring protein; Region: FlgH; cl00905 382638002270 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 382638002271 nuclease NucT; Provisional; Region: PRK13912 382638002272 Catalytic domain of EDTA-resistant nuclease Nuc, vertebrate phospholipase D6, and similar proteins; Region: PLDc_Nuc_like; cd09116 382638002273 putative active site [active] 382638002274 catalytic site [active] 382638002275 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 382638002276 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 382638002277 catalytic site [active] 382638002278 G-X2-G-X-G-K; other site 382638002279 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 382638002280 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 382638002281 arginyl-tRNA synthetase; Region: argS; TIGR00456 382638002282 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 382638002283 active site 382638002284 HIGH motif; other site 382638002285 KMSK motif region; other site 382638002286 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 382638002287 tRNA binding surface [nucleotide binding]; other site 382638002288 anticodon binding site; other site 382638002289 heme oxygenase, HugZ family; Region: heme_ox_HugZ; TIGR04109 382638002290 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 382638002291 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 382638002292 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 382638002293 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 382638002294 putative substrate translocation pore; other site 382638002295 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 382638002296 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 382638002297 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 382638002298 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 382638002299 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638002300 Catalytic domain of Helicobacter pylori peptidoglycan deacetylase (HpPgdA) and similar proteins; Region: CE4_HpPgdA_like; cd10938 382638002301 active site 382638002302 catalytic site [active] 382638002303 Zn binding site [ion binding]; other site 382638002304 tetramer interface [polypeptide binding]; other site 382638002305 Predicted amidohydrolase [General function prediction only]; Region: COG0388 382638002306 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 382638002307 active site 382638002308 catalytic triad [active] 382638002309 dimer interface [polypeptide binding]; other site 382638002310 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 382638002311 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 382638002312 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 382638002313 inhibitor-cofactor binding pocket; inhibition site 382638002314 pyridoxal 5'-phosphate binding site [chemical binding]; other site 382638002315 catalytic residue [active] 382638002316 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 382638002317 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 382638002318 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 382638002319 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 382638002320 Recombination protein O N terminal; Region: RecO_N; cl15812 382638002321 Competence-damaged protein; Region: CinA; cl00666 382638002322 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 382638002323 dimer interface [polypeptide binding]; other site 382638002324 FMN binding site [chemical binding]; other site 382638002325 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 382638002326 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 382638002327 active site 382638002328 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 382638002329 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 382638002330 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 382638002331 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 382638002332 Putative zinc ribbon domain; Region: DUF164; pfam02591 382638002333 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 382638002334 Uncharacterized conserved protein [Function unknown]; Region: COG0327 382638002335 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 382638002336 dimer interface [polypeptide binding]; other site 382638002337 motif 1; other site 382638002338 active site 382638002339 motif 2; other site 382638002340 motif 3; other site 382638002341 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 382638002342 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638002343 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 382638002344 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 382638002345 G3 box; other site 382638002346 Switch II region; other site 382638002347 GTP/Mg2+ binding site [chemical binding]; other site 382638002348 G4 box; other site 382638002349 G5 box; other site 382638002350 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 382638002351 G3 box; other site 382638002352 Switch II region; other site 382638002353 Predicted GTPase [General function prediction only]; Region: ThdF; COG0486 382638002354 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 382638002355 Dynamin family; Region: Dynamin_N; pfam00350 382638002356 G1 box; other site 382638002357 GTP/Mg2+ binding site [chemical binding]; other site 382638002358 G2 box; other site 382638002359 Switch I region; other site 382638002360 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cl11442 382638002361 Nitrogen regulatory protein P-II; Region: P-II; cl00412 382638002362 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 382638002363 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 382638002364 Outer membrane efflux protein; Region: OEP; pfam02321 382638002365 Outer membrane efflux protein; Region: OEP; pfam02321 382638002366 glycyl-tRNA synthetase, tetrameric type, beta subunit; Region: glyS; TIGR00211 382638002367 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 382638002368 Sulfatase; Region: Sulfatase; cl10460 382638002369 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 382638002370 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 382638002371 Ferritin-like domain; Region: Ferritin; pfam00210 382638002372 ferroxidase diiron center [ion binding]; other site 382638002373 phosphoserine phosphatase SerB; Region: serB; TIGR00338 382638002374 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 382638002375 motif II; other site 382638002376 Glycosyltransferase family 10 (fucosyltransferase); Region: Glyco_transf_10; pfam00852 382638002377 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 382638002378 ligand binding site [chemical binding]; other site 382638002379 active site 382638002380 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 382638002381 Aspartase; Region: Aspartase; cd01357 382638002382 active sites [active] 382638002383 tetramer interface [polypeptide binding]; other site 382638002384 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 382638002385 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 382638002386 hinge; other site 382638002387 active site 382638002388 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 382638002389 active site 382638002390 tetramer interface; other site 382638002391 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 382638002392 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 catalyze...; Region: LT_GEWL; cd00254 382638002393 N-acetyl-D-glucosamine binding site [chemical binding]; other site 382638002394 catalytic residue [active] 382638002395 YGGT family; Region: YGGT; cl00508 382638002396 glutamylglutaminyl-tRNA synthetase; Provisional; Region: PRK12410 382638002397 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 382638002398 active site 382638002399 HIGH motif; other site 382638002400 nucleotide binding site [chemical binding]; other site 382638002401 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 382638002402 active site 382638002403 KMSKS motif; other site 382638002404 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 382638002405 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 382638002406 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 382638002407 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 382638002408 G1 box; other site 382638002409 putative GEF interaction site [polypeptide binding]; other site 382638002410 GTP/Mg2+ binding site [chemical binding]; other site 382638002411 Switch I region; other site 382638002412 G2 box; other site 382638002413 G3 box; other site 382638002414 Switch II region; other site 382638002415 G4 box; other site 382638002416 G5 box; other site 382638002417 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 382638002418 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 382638002419 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638002420 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 382638002421 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 382638002422 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 382638002423 Predicted amidohydrolase [General function prediction only]; Region: COG0388 382638002424 multimer interface [polypeptide binding]; other site 382638002425 active site 382638002426 catalytic triad [active] 382638002427 dimer interface [polypeptide binding]; other site 382638002428 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 382638002429 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 382638002430 Coenzyme A binding pocket [chemical binding]; other site 382638002431 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 382638002432 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 382638002433 Survival protein SurE; Region: SurE; cl00448 382638002434 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 382638002435 substrate binding pocket [chemical binding]; other site 382638002436 chain length determination region; other site 382638002437 substrate-Mg2+ binding site; other site 382638002438 catalytic residues [active] 382638002439 aspartate-rich region 1; other site 382638002440 active site lid residues [active] 382638002441 aspartate-rich region 2; other site 382638002442 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 382638002443 GTP cyclohydrolase I; Provisional; Region: PLN03044 382638002444 active site 382638002445 Peptidase family M48; Region: Peptidase_M48; cl12018 382638002446 tRNA pseudouridine synthase, TruD family; Region: tRNA_TruD_broad; TIGR00094 382638002447 PseudoU_synth_EcTruD: Pseudouridine synthase, TruD family. This group consists of bacterial pseudouridine synthases similar to Escherichia coli TruD. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to...; Region: PseudoU_synth_EcTruD; cd02575 382638002448 Permutation of conserved domain; other site 382638002449 active site 382638002450 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 382638002451 recombination protein RecR; Region: recR; TIGR00615 382638002452 RecR protein; Region: RecR; pfam02132 382638002453 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 382638002454 active site 382638002455 metal binding site [ion binding]; metal-binding site 382638002456 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 382638002457 hexamer interface [polypeptide binding]; other site 382638002458 active site 2 [active] 382638002459 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 382638002460 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 382638002461 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 382638002462 active site 382638002463 HIGH motif; other site 382638002464 nucleotide binding site [chemical binding]; other site 382638002465 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 382638002466 active site 382638002467 KMSKS motif; other site 382638002468 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 382638002469 Protein of unknown function (DUF3519); Region: DUF3519; pfam12033 382638002470 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 382638002471 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 382638002472 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 382638002473 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 382638002474 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 382638002475 active site 382638002476 Zn binding site [ion binding]; other site 382638002477 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; cl00159 382638002478 CoB--CoM heterodisulfide reductase, subunit B; Region: CoB_CoM_SS_B; TIGR03288 382638002479 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 382638002480 putative metal binding site [ion binding]; other site 382638002481 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 382638002482 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 382638002483 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 382638002484 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 382638002485 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 382638002486 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 382638002487 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 382638002488 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638002489 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 382638002490 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 382638002491 polyphosphate kinase; Provisional; Region: PRK05443 382638002492 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 382638002493 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 382638002494 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 382638002495 putative domain interface [polypeptide binding]; other site 382638002496 putative active site [active] 382638002497 catalytic site [active] 382638002498 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 382638002499 putative active site [active] 382638002500 putative domain interface [polypeptide binding]; other site 382638002501 catalytic site [active] 382638002502 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 382638002503 quinone interaction residues [chemical binding]; other site 382638002504 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 382638002505 active site 382638002506 catalytic residues [active] 382638002507 FMN binding site [chemical binding]; other site 382638002508 substrate binding site [chemical binding]; other site 382638002509 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 382638002510 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 382638002511 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 382638002512 dihydrodipicolinate synthase; Region: dapA; TIGR00674 382638002513 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 382638002514 dimer interface [polypeptide binding]; other site 382638002515 active site 382638002516 catalytic residue [active] 382638002517 7-alpha-hydroxysteroid dehydrogenase; Provisional; Region: PRK08416 382638002518 1-cyclohexenylcarbonyl_coenzyme A_reductase (ChcA)_like, classical (c) SDRs; Region: ChcA_like_SDR_c; cd05359 382638002519 putative NAD(P) binding site [chemical binding]; other site 382638002520 active site 382638002521 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 382638002522 Amino acid transporters [Amino acid transport and metabolism]; Region: LysP; COG0833 382638002523 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 382638002524 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 382638002525 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 382638002526 protein binding site [polypeptide binding]; other site 382638002527 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 382638002528 protein binding site [polypeptide binding]; other site 382638002529 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 382638002530 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 382638002531 substrate binding site; other site 382638002532 dimer interface; other site 382638002533 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 382638002534 homotrimer interaction site [polypeptide binding]; other site 382638002535 zinc binding site [ion binding]; other site 382638002536 CDP-binding sites; other site 382638002537 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 382638002538 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 382638002539 active site 382638002540 phosphorylation site [posttranslational modification] 382638002541 intermolecular recognition site; other site 382638002542 dimerization interface [polypeptide binding]; other site 382638002543 DNA-binding transcriptional regulator DhaR; Provisional; Region: PRK11388 382638002544 5'-3' exonuclease; Provisional; Region: PRK14976 382638002545 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 382638002546 putative active site [active] 382638002547 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 382638002548 DNA binding site [nucleotide binding] 382638002549 metal binding site [ion binding]; metal-binding site 382638002550 chaperone protein DnaJ; Provisional; Region: PRK14299 382638002551 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 382638002552 HSP70 interaction site [polypeptide binding]; other site 382638002553 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 382638002554 substrate binding site [polypeptide binding]; other site 382638002555 dimer interface [polypeptide binding]; other site 382638002556 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 382638002557 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 382638002558 DNA binding residues [nucleotide binding] 382638002559 putative dimer interface [polypeptide binding]; other site 382638002560 recombination factor protein RarA; Reviewed; Region: PRK13342 382638002561 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 382638002562 Walker A motif; other site 382638002563 ATP binding site [chemical binding]; other site 382638002564 Walker B motif; other site 382638002565 arginine finger; other site 382638002566 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 382638002567 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 382638002568 metal binding site 2 [ion binding]; metal-binding site 382638002569 putative DNA binding helix; other site 382638002570 metal binding site 1 [ion binding]; metal-binding site 382638002571 dimer interface [polypeptide binding]; other site 382638002572 structural Zn2+ binding site [ion binding]; other site 382638002573 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 382638002574 Domain of unknown function (DUF386); Region: DUF386; cl01047 382638002575 flagellar motor switch protein FliY; Validated; Region: PRK08432 382638002576 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 382638002577 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 382638002578 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 382638002579 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 382638002580 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 382638002581 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 382638002582 DNA binding residues [nucleotide binding] 382638002583 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 382638002584 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 382638002585 P-loop; other site 382638002586 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 382638002587 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 382638002588 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 382638002589 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 382638002590 catalytic center binding site [active] 382638002591 ATP binding site [chemical binding]; other site 382638002592 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 382638002593 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 382638002594 active site 382638002595 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 382638002596 trimer interface [polypeptide binding]; other site 382638002597 active site 382638002598 dimer interface [polypeptide binding]; other site 382638002599 O-Antigen ligase; Region: Wzy_C; cl04850 382638002600 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 382638002601 16S/18S rRNA binding site [nucleotide binding]; other site 382638002602 S13e-L30e interaction site [polypeptide binding]; other site 382638002603 25S rRNA binding site [nucleotide binding]; other site 382638002604 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 382638002605 FHIPEP family; Region: FHIPEP; pfam00771 382638002606 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 382638002607 DHH family; Region: DHH; pfam01368 382638002608 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 382638002609 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 382638002610 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 382638002611 active site 382638002612 intermolecular recognition site; other site 382638002613 dimerization interface [polypeptide binding]; other site 382638002614 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 382638002615 DNA binding site [nucleotide binding] 382638002616 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 382638002617 putative active site [active] 382638002618 putative metal binding site [ion binding]; other site 382638002619 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 382638002620 acetyl-CoA synthetase; Provisional; Region: PRK00174 382638002621 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 382638002622 AMP-binding enzyme; Region: AMP-binding; cl15778 382638002623 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 382638002624 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 382638002625 Uncharacterized BCR, YhbC family COG0779; Region: DUF150; pfam02576 382638002626 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 382638002627 Sm1 motif; other site 382638002628 D3 - B interaction site; other site 382638002629 D1 - D2 interaction site; other site 382638002630 Hfq - Hfq interaction site; other site 382638002631 RNA binding pocket [nucleotide binding]; other site 382638002632 Sm2 motif; other site 382638002633 Ribosome-binding factor A; Region: RBFA; cl00542 382638002634 translation initiation factor IF-2; Validated; Region: infB; PRK05306 382638002635 translation initiation factor IF-2; Region: IF-2; TIGR00487 382638002636 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 382638002637 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 382638002638 G1 box; other site 382638002639 putative GEF interaction site [polypeptide binding]; other site 382638002640 GTP/Mg2+ binding site [chemical binding]; other site 382638002641 Switch I region; other site 382638002642 G2 box; other site 382638002643 G3 box; other site 382638002644 Switch II region; other site 382638002645 G4 box; other site 382638002646 G5 box; other site 382638002647 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 382638002648 Translation-initiation factor 2; Region: IF-2; pfam11987 382638002649 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 382638002650 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cl00189 382638002651 homoserine kinase; Region: thrB; TIGR00191 382638002652 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 382638002653 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 382638002654 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 382638002655 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 382638002656 septum formation inhibitor; Reviewed; Region: minC; PRK00556 382638002657 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 382638002658 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 382638002659 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 382638002660 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 382638002661 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 382638002662 oligomerization interface [polypeptide binding]; other site 382638002663 active site 382638002664 metal binding site [ion binding]; metal-binding site 382638002665 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 382638002666 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 382638002667 Walker A motif; other site 382638002668 ATP binding site [chemical binding]; other site 382638002669 Walker B motif; other site 382638002670 arginine finger; other site 382638002671 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 382638002672 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 382638002673 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 382638002674 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 382638002675 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 382638002676 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; cl15754 382638002677 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 382638002678 Response regulator receiver domain; Region: Response_reg; pfam00072 382638002679 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 382638002680 active site 382638002681 phosphorylation site [posttranslational modification] 382638002682 intermolecular recognition site; other site 382638002683 dimerization interface [polypeptide binding]; other site 382638002684 ribosomal protein L11 methyltransferase; Region: prmA; TIGR00406 382638002685 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638002686 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 382638002687 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 382638002688 Walker A motif; other site 382638002689 ATP binding site [chemical binding]; other site 382638002690 Walker B motif; other site 382638002691 arginine finger; other site 382638002692 Peptidase family M41; Region: Peptidase_M41; pfam01434 382638002693 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 382638002694 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 382638002695 metal-binding site [ion binding] 382638002696 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 382638002697 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 382638002698 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 382638002699 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 382638002700 metal-binding site [ion binding] 382638002701 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cd00596 382638002702 active site 382638002703 Zn binding site [ion binding]; other site 382638002704 High-affinity nickel-transport protein; Region: NicO; cl00964 382638002705 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 382638002706 RNA/DNA binding site [nucleotide binding]; other site 382638002707 ATP synthase A chain; Region: ATP-synt_A; cl00413 382638002708 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 382638002709 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; cl09108 382638002710 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 key...; Region: CBS_pair_IMPDH; cd04601 382638002711 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 the guanine...; Region: IMPDH; cd00381 382638002712 active site 382638002713 amidohydrolase, AtzE family; Region: amido_AtzE; TIGR02715 382638002714 Amidase; Region: Amidase; cl11426 382638002715 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 382638002716 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 382638002717 CoA-binding site [chemical binding]; other site 382638002718 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; cl15754 382638002719 spermidine synthase; Provisional; Region: PRK00811 382638002720 GTP-binding protein Der; Reviewed; Region: PRK00093 382638002721 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 382638002722 G1 box; other site 382638002723 GTP/Mg2+ binding site [chemical binding]; other site 382638002724 Switch I region; other site 382638002725 G2 box; other site 382638002726 Switch II region; other site 382638002727 G3 box; other site 382638002728 G4 box; other site 382638002729 G5 box; other site 382638002730 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 382638002731 G1 box; other site 382638002732 GTP/Mg2+ binding site [chemical binding]; other site 382638002733 Switch I region; other site 382638002734 G2 box; other site 382638002735 G3 box; other site 382638002736 Switch II region; other site 382638002737 G4 box; other site 382638002738 G5 box; other site 382638002739 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 382638002740 IHF dimer interface [polypeptide binding]; other site 382638002741 IHF - DNA interface [nucleotide binding]; other site 382638002742 LPP20 lipoprotein; Region: LPP20; cl15824 382638002743 LPP20 lipoprotein; Region: LPP20; cl15824 382638002744 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 382638002745 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 382638002746 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 382638002747 NAD(P) binding site [chemical binding]; other site 382638002748 homodimer interface [polypeptide binding]; other site 382638002749 substrate binding site [chemical binding]; other site 382638002750 active site 382638002751 phosphopantothenoylcysteine decarboxylase/phosphopantothenate--cysteine ligase, prokaryotic; Region: coaBC_dfp; TIGR00521 382638002752 Flavoprotein; Region: Flavoprotein; cl08021 382638002753 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 382638002754 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 382638002755 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 382638002756 cofactor binding site; other site 382638002757 DNA binding site [nucleotide binding] 382638002758 substrate interaction site [chemical binding]; other site 382638002759 HaeIII restriction endonuclease; Region: RE_HaeIII; pfam09556 382638002760 PAP2_like_2 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_2; cd03392 382638002761 active site 382638002762 Protein of unknown function (DUF511); Region: DUF511; cl01114 382638002763 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 382638002764 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 382638002765 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 382638002766 ABC transporter; Region: ABC_tran_2; pfam12848 382638002767 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 382638002768 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 382638002769 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 382638002770 active site 382638002771 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 382638002772 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 382638002773 putative ribose interaction site [chemical binding]; other site 382638002774 putative ADP binding site [chemical binding]; other site 382638002775 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 382638002776 active site 382638002777 nucleotide binding site [chemical binding]; other site 382638002778 HIGH motif; other site 382638002779 KMSKS motif; other site 382638002780 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638002781 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 382638002782 NAD(P) binding site [chemical binding]; other site 382638002783 active site 382638002784 D,D-heptose 1,7-bisphosphate phosphatase; Region: GmhB_yaeD; TIGR00213 382638002785 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 382638002786 active site 382638002787 motif I; other site 382638002788 motif II; other site 382638002789 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 382638002790 Type III pantothenate kinase; Region: Pan_kinase; cl09130 382638002791 PQQ-like domain; Region: PQQ_2; pfam13360 382638002792 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 382638002793 trimer interface [polypeptide binding]; other site 382638002794 active site 382638002795 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 382638002796 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 382638002797 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 382638002798 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 382638002799 lipid-A-disaccharide synthase; Region: lpxB; TIGR00215 382638002800 hydrogenase nickel incorporation protein; Provisional; Region: hypA; cl00418 382638002801 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 382638002802 flagellar hook protein FlgE; Validated; Region: flgE; PRK08425 382638002803 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 382638002804 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 382638002805 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 382638002806 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 382638002807 CDP-diacylglycerol pyrophosphatase; Region: CDH; cl00934 382638002808 PhnA protein; Region: PhnA; pfam03831 382638002809 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 382638002810 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 382638002811 tetramer interface [polypeptide binding]; other site 382638002812 heme binding pocket [chemical binding]; other site 382638002813 NADPH binding site [chemical binding]; other site 382638002814 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 382638002815 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; cl00284 382638002816 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; cl00284 382638002817 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 includes...; Region: RuvC_resolvase; cd00529 382638002818 active site 382638002819 putative DNA-binding cleft [nucleotide binding]; other site 382638002820 dimer interface [polypeptide binding]; other site 382638002821 Uncharacterized conserved protein [Function unknown]; Region: COG1432 382638002822 LabA_like proteins; Region: LabA_like; cd06167 382638002823 putative metal binding site [ion binding]; other site 382638002824 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 382638002825 Holliday junction DNA helicase, RuvA subunit; Region: ruvA; TIGR00084 382638002826 RuvA N terminal domain; Region: RuvA_N; pfam01330 382638002827 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 382638002828 MviN-like protein; Region: MVIN; pfam03023 382638002829 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 382638002830 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 382638002831 active site 382638002832 HIGH motif; other site 382638002833 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 382638002834 KMSKS motif; other site 382638002835 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 382638002836 tRNA binding surface [nucleotide binding]; other site 382638002837 anticodon binding site; other site 382638002838 Vacuolating cyotoxin; Region: VacA; pfam02691 382638002839 Vacuolating cyotoxin; Region: VacA; pfam02691 382638002840 Vacuolating cyotoxin; Region: VacA; pfam02691 382638002841 Vacuolating cyotoxin; Region: VacA; pfam02691 382638002842 Vacuolating cyotoxin; Region: VacA; pfam02691 382638002843 Vacuolating cyotoxin; Region: VacA; pfam02691 382638002844 Vacuolating cyotoxin; Region: VacA; pfam02691 382638002845 Vacuolating cyotoxin; Region: VacA; pfam02691 382638002846 Vacuolating cyotoxin; Region: VacA; pfam02691 382638002847 Vacuolating cyotoxin; Region: VacA; pfam02691 382638002848 Alpha-2,3-sialyltransferase (CST-I); Region: CST-I; pfam06002 382638002849 Alpha-2,3-sialyltransferase (CST-I); Region: CST-I; pfam06002 382638002850 chromosome segregation protein; Provisional; Region: PRK03918 382638002851 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 382638002852 ligand binding site; other site 382638002853 tetramer interface; other site 382638002854 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 382638002855 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 382638002856 active site 382638002857 homodimer interface [polypeptide binding]; other site 382638002858 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 382638002859 NeuB family; Region: NeuB; cl00496 382638002860 SAF domain; Region: SAF; cl00555 382638002861 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 382638002862 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 382638002863 Walker A/P-loop; other site 382638002864 ATP binding site [chemical binding]; other site 382638002865 Q-loop/lid; other site 382638002866 ABC transporter signature motif; other site 382638002867 Walker B; other site 382638002868 D-loop; other site 382638002869 H-loop/switch region; other site 382638002870 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 382638002871 ABC-ATPase subunit interface; other site 382638002872 dimer interface [polypeptide binding]; other site 382638002873 putative PBP binding regions; other site 382638002874 short chain dehydrogenase; Validated; Region: PRK06182 382638002875 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 382638002876 NADP binding site [chemical binding]; other site 382638002877 active site 382638002878 steroid binding site; other site 382638002879 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 382638002880 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 382638002881 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 382638002882 Hydrogenase formation hypA family; Region: HypD; cl12072 382638002883 HupF/HypC family; Region: HupF_HypC; cl00394 382638002884 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 382638002885 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 382638002886 Acetokinase family; Region: Acetate_kinase; cl01029 382638002887 propionate/acetate kinase; Provisional; Region: PRK12379 382638002888 BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857 382638002889 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 382638002890 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 382638002891 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 382638002892 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK05842 382638002893 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 382638002894 FlgD Ig-like domain; Region: FlgD_ig; cl15790 382638002895 flagellar hook protein FlgE; Validated; Region: flgE; PRK05841 382638002896 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 382638002897 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 382638002898 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638002899 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 382638002900 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 382638002901 Family description; Region: UvrD_C_2; cl15862 382638002902 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 382638002903 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 382638002904 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 382638002905 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 382638002906 N-terminal plug; other site 382638002907 ligand-binding site [chemical binding]; other site 382638002908 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 382638002909 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 382638002910 dimer interface [polypeptide binding]; other site 382638002911 conserved gate region; other site 382638002912 putative PBP binding loops; other site 382638002913 ABC-ATPase subunit interface; other site 382638002914 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 382638002915 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 382638002916 substrate binding pocket [chemical binding]; other site 382638002917 membrane-bound complex binding site; other site 382638002918 hinge residues; other site 382638002919 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 382638002920 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 382638002921 homotrimer interaction site [polypeptide binding]; other site 382638002922 putative active site [active] 382638002923 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 382638002924 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638002925 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 382638002926 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 382638002927 alanine racemase; Region: alr; TIGR00492 382638002928 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 382638002929 active site 382638002930 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 382638002931 dimer interface [polypeptide binding]; other site 382638002932 substrate binding site [chemical binding]; other site 382638002933 catalytic residues [active] 382638002934 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 382638002935 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 382638002936 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK14593 382638002937 RimM N-terminal domain; Region: RimM; pfam01782 382638002938 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; cl09959 382638002939 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 382638002940 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 382638002941 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 382638002942 signal recognition particle protein; Provisional; Region: PRK10867 382638002943 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 382638002944 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 382638002945 P loop; other site 382638002946 GTP binding site [chemical binding]; other site 382638002947 Signal peptide binding domain; Region: SRP_SPB; pfam02978 382638002948 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 382638002949 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 382638002950 active site 382638002951 HIGH motif; other site 382638002952 nucleotide binding site [chemical binding]; other site 382638002953 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 382638002954 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 382638002955 active site 382638002956 KMSKS motif; other site 382638002957 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 382638002958 anticodon binding site; other site 382638002959 FliW protein; Region: FliW; cl00740 382638002960 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Region: murG; TIGR01133 382638002961 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 382638002962 active site 382638002963 homodimer interface [polypeptide binding]; other site 382638002964 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 382638002965 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 382638002966 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 382638002967 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638002968 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 382638002969 Fic/DOC family; Region: Fic; cl00960 382638002970 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 382638002971 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 382638002972 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 382638002973 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 382638002974 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 382638002975 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 382638002976 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 382638002977 Predicted helicase [General function prediction only]; Region: COG4889 382638002978 Predicted helicase [General function prediction only]; Region: COG4889 382638002979 Restriction endonuclease; Region: Mrr_cat; cl00516 382638002980 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 382638002981 ATP binding site [chemical binding]; other site 382638002982 putative Mg++ binding site [ion binding]; other site 382638002983 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 382638002984 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 382638002985 active site 1 [active] 382638002986 dimer interface [polypeptide binding]; other site 382638002987 hexamer interface [polypeptide binding]; other site 382638002988 active site 2 [active] 382638002989 Rad52/22 family double-strand break repair protein; Region: Rad52_Rad22; cl01936 382638002990 Domain of unknown function (DUF932); Region: DUF932; cl12129 382638002991 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 382638002992 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 382638002993 active site 382638002994 dimer interface [polypeptide binding]; other site 382638002995 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 382638002996 dimer interface [polypeptide binding]; other site 382638002997 active site 382638002998 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638002999 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638003000 exodeoxyribonuclease VII, large subunit; Region: xseA; TIGR00237 382638003001 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 382638003002 generic binding surface II; other site 382638003003 generic binding surface I; other site 382638003004 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 382638003005 RIP metalloprotease RseP; Region: TIGR00054 382638003006 active site 382638003007 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 382638003008 protein binding site [polypeptide binding]; other site 382638003009 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 382638003010 putative substrate binding region [chemical binding]; other site 382638003011 MgtE intracellular N domain; Region: MgtE_N; cl15244 382638003012 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 382638003013 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 382638003014 GDP-binding site [chemical binding]; other site 382638003015 ACT binding site; other site 382638003016 IMP binding site; other site 382638003017 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 382638003018 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 382638003019 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 382638003020 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 382638003021 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 382638003022 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 382638003023 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 382638003024 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 382638003025 Q-loop/lid; other site 382638003026 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 382638003027 Walker B; other site 382638003028 D-loop; other site 382638003029 H-loop/switch region; other site 382638003030 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 382638003031 Walker A/P-loop; other site 382638003032 ATP binding site [chemical binding]; other site 382638003033 Q-loop/lid; other site 382638003034 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 382638003035 ABC transporter signature motif; other site 382638003036 Walker B; other site 382638003037 D-loop; other site 382638003038 H-loop/switch region; other site 382638003039 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 382638003040 Protein of unknown function (DUF2393); Region: DUF2393; pfam09624 382638003041 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 382638003042 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 382638003043 helicase 45; Provisional; Region: PTZ00424 382638003044 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 382638003045 ATP binding site [chemical binding]; other site 382638003046 Mg++ binding site [ion binding]; other site 382638003047 motif III; other site 382638003048 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 382638003049 nucleotide binding region [chemical binding]; other site 382638003050 ATP-binding site [chemical binding]; other site 382638003051 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 382638003052 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 382638003053 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 382638003054 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 382638003055 dimer interface [polypeptide binding]; other site 382638003056 phosphorylation site [posttranslational modification] 382638003057 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 382638003058 ATP binding site [chemical binding]; other site 382638003059 Mg2+ binding site [ion binding]; other site 382638003060 G-X-G motif; other site 382638003061 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 382638003062 Ferritin-like domain; Region: Ferritin; pfam00210 382638003063 dimerization interface [polypeptide binding]; other site 382638003064 DPS ferroxidase diiron center [ion binding]; other site 382638003065 ion pore; other site 382638003066 Domain of unknown function (DUF2018); Region: DUF2018; pfam09442 382638003067 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 382638003068 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 382638003069 substrate binding pocket [chemical binding]; other site 382638003070 chain length determination region; other site 382638003071 substrate-Mg2+ binding site; other site 382638003072 catalytic residues [active] 382638003073 aspartate-rich region 1; other site 382638003074 active site lid residues [active] 382638003075 aspartate-rich region 2; other site 382638003076 glutamyl-tRNA reductase; Region: hemA; TIGR01035 382638003077 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 382638003078 tRNA; other site 382638003079 putative tRNA binding site [nucleotide binding]; other site 382638003080 putative NADP binding site [chemical binding]; other site 382638003081 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 382638003082 prolyl-tRNA synthetase; Provisional; Region: PRK09194 382638003083 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 formation of...; Region: ProRS_core_prok; cd00779 382638003084 dimer interface [polypeptide binding]; other site 382638003085 motif 1; other site 382638003086 active site 382638003087 motif 2; other site 382638003088 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 382638003089 putative deacylase active site [active] 382638003090 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 attaches...; Region: class_II_aaRS-like_core; cl00268 382638003091 active site 382638003092 motif 3; other site 382638003093 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 382638003094 anticodon binding site; other site 382638003095 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 382638003096 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 382638003097 domain interfaces; other site 382638003098 active site 382638003099 Cytochrome c; Region: Cytochrom_C; cl11414 382638003100 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 382638003101 Sel1 repeat; Region: Sel1; cl02723 382638003102 Sel1 repeat; Region: Sel1; cl02723 382638003103 Sel1 repeat; Region: Sel1; cl02723 382638003104 Sel1 repeat; Region: Sel1; cl02723 382638003105 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 382638003106 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 382638003107 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 382638003108 ABC transporter signature motif; other site 382638003109 Walker B; other site 382638003110 D-loop; other site 382638003111 H-loop/switch region; other site 382638003112 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 382638003113 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 382638003114 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 382638003115 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 382638003116 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 382638003117 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 382638003118 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 382638003119 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 382638003120 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 382638003121 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 382638003122 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 382638003123 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 382638003124 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 382638003125 substrate binding site [chemical binding]; other site 382638003126 active site 382638003127 3-methyladenine DNA glycosylase; Provisional; Region: PRK13913 382638003128 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 382638003129 minor groove reading motif; other site 382638003130 helix-hairpin-helix signature motif; other site 382638003131 substrate binding pocket [chemical binding]; other site 382638003132 active site 382638003133 flagellin A; Reviewed; Region: PRK12584 382638003134 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 382638003135 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 382638003136 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 382638003137 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 382638003138 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 382638003139 Walker A/P-loop; other site 382638003140 ATP binding site [chemical binding]; other site 382638003141 ABC transporter; Region: ABC_tran; pfam00005 382638003142 Q-loop/lid; other site 382638003143 ABC transporter signature motif; other site 382638003144 Walker B; other site 382638003145 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 382638003146 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 382638003147 dimer interface [polypeptide binding]; other site 382638003148 putative CheW interface [polypeptide binding]; other site 382638003149 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 382638003150 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 382638003151 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 382638003152 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 382638003153 catalytic residue [active] 382638003154 Transglycosylase; Region: Transgly; cl07896 382638003155 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 382638003156 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 382638003157 tumor necrosis factor alpha-inducing protein; Reviewed; Region: PRK12303 382638003158 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 382638003159 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 382638003160 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638003161 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638003162 Restriction endonuclease [Defense mechanisms]; Region: COG3587 382638003163 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 382638003164 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 382638003165 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 382638003166 2-oxoglutarate-acceptor oxidoreductase subunit OorB; Reviewed; Region: oorB; PRK09628 382638003167 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 382638003168 TPP-binding site [chemical binding]; other site 382638003169 2-oxoglutarate-acceptor oxidoreductase subunit OorA; Reviewed; Region: oorA; PRK09627 382638003170 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 382638003171 dimer interface [polypeptide binding]; other site 382638003172 PYR/PP interface [polypeptide binding]; other site 382638003173 TPP binding site [chemical binding]; other site 382638003174 substrate binding site [chemical binding]; other site 382638003175 2-oxoglutarate-acceptor oxidoreductase subunit OorD; Reviewed; Region: oorD; PRK09626 382638003176 4Fe-4S binding domain; Region: Fer4; cl02805 382638003177 YceG-like family; Region: YceG; pfam02618 382638003178 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 382638003179 dimerization interface [polypeptide binding]; other site 382638003180 Protein of unknown function; Region: DUF3971; pfam13116 382638003181 AsmA-like C-terminal region; Region: AsmA_2; cl15864 382638003182 FeoA domain; Region: FeoA; cl00838 382638003183 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 382638003184 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 382638003185 minor groove reading motif; other site 382638003186 helix-hairpin-helix signature motif; other site 382638003187 substrate binding pocket [chemical binding]; other site 382638003188 active site 382638003189 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 382638003190 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 382638003191 Gram-negative bacterial tonB protein; Region: TonB; cl10048 382638003192 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 382638003193 active site 382638003194 substrate binding pocket [chemical binding]; other site 382638003195 dimer interface [polypeptide binding]; other site 382638003196 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cl01922 382638003197 BNR repeat-like domain; Region: BNR_2; pfam13088 382638003198 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 382638003199 Sulfatase; Region: Sulfatase; cl10460 382638003200 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14191 382638003201 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 382638003202 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 382638003203 homodimer interface [polypeptide binding]; other site 382638003204 NADP binding site [chemical binding]; other site 382638003205 substrate binding site [chemical binding]; other site 382638003206 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 382638003207 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 382638003208 Catalytic site [active] 382638003209 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 382638003210 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 382638003211 active site 382638003212 putative substrate binding region [chemical binding]; other site 382638003213 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 382638003214 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 382638003215 TSC-22/dip/bun family; Region: TSC22; cl01853 382638003216 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 382638003217 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 382638003218 active site 382638003219 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 382638003220 multifunctional aminopeptidase A; Provisional; Region: PRK00913 382638003221 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 382638003222 interface (dimer of trimers) [polypeptide binding]; other site 382638003223 Substrate-binding/catalytic site; other site 382638003224 Zn-binding sites [ion binding]; other site 382638003225 GTP-binding protein YchF; Reviewed; Region: PRK09601 382638003226 YchF GTPase; Region: YchF; cd01900 382638003227 G1 box; other site 382638003228 GTP/Mg2+ binding site [chemical binding]; other site 382638003229 Switch I region; other site 382638003230 G2 box; other site 382638003231 Switch II region; other site 382638003232 G3 box; other site 382638003233 G4 box; other site 382638003234 G5 box; other site 382638003235 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 382638003236 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 382638003237 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 382638003238 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 382638003239 N-terminal plug; other site 382638003240 ligand-binding site [chemical binding]; other site 382638003241 Protein of unknown function (DUF1104); Region: DUF1104; pfam06518 382638003242 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 382638003243 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 382638003244 23S rRNA binding site [nucleotide binding]; other site 382638003245 L21 binding site [polypeptide binding]; other site 382638003246 L13 binding site [polypeptide binding]; other site 382638003247 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 382638003248 translation initiation factor IF-3; Region: infC; TIGR00168 382638003249 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 382638003250 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 382638003251 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 382638003252 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 382638003253 active site 382638003254 dimer interface [polypeptide binding]; other site 382638003255 motif 1; other site 382638003256 motif 2; other site 382638003257 motif 3; other site 382638003258 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 382638003259 anticodon binding site; other site 382638003260 phosphoenolpyruvate synthase; Validated; Region: PRK06464 382638003261 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 382638003262 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 382638003263 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; cl09155 382638003264 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 382638003265 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 382638003266 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 382638003267 metal-binding site 382638003268 Cache domain; Region: Cache_2; cl07034 382638003269 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 382638003270 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 382638003271 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 382638003272 dimer interface [polypeptide binding]; other site 382638003273 putative CheW interface [polypeptide binding]; other site 382638003274 S-Ribosylhomocysteinase (LuxS); Region: LuxS; cl00802 382638003275 cystathionine gamma-synthase/cystathionine beta-lyase; Validated; Region: PRK06176 382638003276 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 382638003277 homodimer interface [polypeptide binding]; other site 382638003278 substrate-cofactor binding pocket; other site 382638003279 pyridoxal 5'-phosphate binding site [chemical binding]; other site 382638003280 catalytic residue [active] 382638003281 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 382638003282 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 382638003283 dimer interface [polypeptide binding]; other site 382638003284 pyridoxal 5'-phosphate binding site [chemical binding]; other site 382638003285 catalytic residue [active] 382638003286 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 382638003287 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 382638003288 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 382638003289 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 382638003290 dimer interface [polypeptide binding]; other site 382638003291 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 382638003292 heat-inducible transcription repressor; Provisional; Region: PRK03911 382638003293 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 382638003294 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 382638003295 flagellin B; Provisional; Region: PRK13588 382638003296 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 382638003297 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 382638003298 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 382638003299 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 382638003300 DNA topoisomerase I; Validated; Region: PRK05582 382638003301 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 382638003302 active site 382638003303 interdomain interaction site; other site 382638003304 putative metal-binding site [ion binding]; other site 382638003305 nucleotide binding site [chemical binding]; other site 382638003306 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 382638003307 domain I; other site 382638003308 DNA binding groove [nucleotide binding] 382638003309 phosphate binding site [ion binding]; other site 382638003310 domain II; other site 382638003311 domain III; other site 382638003312 nucleotide binding site [chemical binding]; other site 382638003313 catalytic site [active] 382638003314 domain IV; other site 382638003315 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 382638003316 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 382638003317 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 382638003318 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 382638003319 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 382638003320 FeS/SAM binding site; other site 382638003321 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases and ATP sulphurylases. The domain forms a apha/beta/apha fold which binds to Adenosine group; Region: Alpha_ANH_like; cd01986 382638003322 Ligand Binding Site [chemical binding]; other site 382638003323 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 382638003324 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 382638003325 dimer interface [polypeptide binding]; other site 382638003326 putative CheW interface [polypeptide binding]; other site 382638003327 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 382638003328 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants, cyanobacteria; Region: Thr-synth_2; cd01560 382638003329 pyridoxal 5'-phosphate binding site [chemical binding]; other site 382638003330 catalytic residue [active] 382638003331 2-hydroxyacid dehydrogenase; Provisional; Region: PRK08410 382638003332 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638003333 Transposase IS200 like; Region: Y1_Tnp; cl00848 382638003334 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 382638003335 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 382638003336 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 382638003337 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 382638003338 SelR domain; Region: SelR; pfam01641 382638003339 DNA repair protein RadA; Region: sms; TIGR00416 382638003340 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 382638003341 Walker A motif/ATP binding site; other site 382638003342 ATP binding site [chemical binding]; other site 382638003343 Walker B motif; other site 382638003344 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 382638003345 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 382638003346 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 382638003347 trimerization site [polypeptide binding]; other site 382638003348 active site 382638003349 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 382638003350 NifU-like domain; Region: NifU; cl00484 382638003351 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 382638003352 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 382638003353 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 382638003354 catalytic residue [active] 382638003355 Helix-turn-helix domains; Region: HTH; cl00088 382638003356 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 382638003357 substrate binding site [chemical binding]; other site 382638003358 Beta-1,4-N-acetylgalactosaminyltransferase (CgtA); Region: CgtA; pfam06306 382638003359 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 382638003360 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 382638003361 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 382638003362 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 382638003363 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 382638003364 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 382638003365 transmembrane helices; other site 382638003366 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 382638003367 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 382638003368 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638003369 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 382638003370 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 382638003371 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 382638003372 metal binding site [ion binding]; metal-binding site 382638003373 dimer interface [polypeptide binding]; other site 382638003374 heat shock protein 90; Provisional; Region: PRK05218 382638003375 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 382638003376 ATP binding site [chemical binding]; other site 382638003377 Mg2+ binding site [ion binding]; other site 382638003378 G-X-G motif; other site 382638003379 Glycosyl transferase family 11; Region: Glyco_transf_11; pfam01531 382638003380 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638003381 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638003382 Protein of unknown function (DUF511); Region: DUF511; cl01114 382638003383 Protein of unknown function (DUF511); Region: DUF511; cl01114 382638003384 Acyl transferase domain; Region: Acyl_transf_1; cl08282 382638003385 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 382638003386 5'-methylthioadenosine nucleosidase; Region: PLN02584 382638003387 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 382638003388 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 382638003389 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 382638003390 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 382638003391 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 382638003392 DNA binding residues [nucleotide binding] 382638003393 NLPC_P60 stabilising domain, N term; Region: N_NLPC_P60; pfam12912 382638003394 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 382638003395 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 382638003396 NlpC/P60 family; Region: NLPC_P60; cl11438 382638003397 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638003398 Predicted dehydrogenase [General function prediction only]; Region: COG0579 382638003399 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 382638003400 23S rRNA interface [nucleotide binding]; other site 382638003401 L3 interface [polypeptide binding]; other site 382638003402 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 382638003403 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 382638003404 dimer interface [polypeptide binding]; other site 382638003405 putative CheW interface [polypeptide binding]; other site 382638003406 peptide chain release factor 1; Validated; Region: prfA; PRK00591 382638003407 RF-1 domain; Region: RF-1; cl02875 382638003408 RF-1 domain; Region: RF-1; cl02875 382638003409 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 382638003410 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14324 382638003411 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 382638003412 active site 382638003413 substrate binding site [chemical binding]; other site 382638003414 metal binding site [ion binding]; metal-binding site 382638003415 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 382638003416 urease subunit alpha; Provisional; Region: PRK13986 382638003417 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 382638003418 alpha-gamma subunit interface [polypeptide binding]; other site 382638003419 beta-gamma subunit interface [polypeptide binding]; other site 382638003420 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 382638003421 gamma-beta subunit interface [polypeptide binding]; other site 382638003422 alpha-beta subunit interface [polypeptide binding]; other site 382638003423 urease subunit beta; Provisional; Region: ureB; PRK13985 382638003424 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 382638003425 subunit interactions [polypeptide binding]; other site 382638003426 active site 382638003427 flap region; other site 382638003428 AmiS/UreI family transporter; Region: AmiS_UreI; pfam02293 382638003429 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 382638003430 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 382638003431 dimer interface [polypeptide binding]; other site 382638003432 catalytic residues [active] 382638003433 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 382638003434 UreF; Region: UreF; pfam01730 382638003435 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 382638003436 UreD urease accessory protein; Region: UreD; cl00530 382638003437 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 382638003438 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 382638003439 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 382638003440 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 382638003441 Ligand binding site; other site 382638003442 metal-binding site 382638003443 DNase/tRNase domain of colicin-like bacteriocin; Region: Colicin-DNase; cl15861 382638003444 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 382638003445 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 382638003446 Probable transposase; Region: OrfB_IS605; pfam01385 382638003447 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 382638003448 Transposase IS200 like; Region: Y1_Tnp; cl00848 382638003449 Proline dehydrogenase; Region: Pro_dh; cl03282 382638003450 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 382638003451 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 382638003452 Glutamate binding site [chemical binding]; other site 382638003453 NAD binding site [chemical binding]; other site 382638003454 catalytic residues [active] 382638003455 Sodium:solute symporter family; Region: SSF; cl00456 382638003456 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 382638003457 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 382638003458 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 382638003459 Ligand binding site; other site 382638003460 metal-binding site 382638003461 antiporter inner membrane protein; Provisional; Region: PRK11670 382638003462 Domain of unknown function DUF59; Region: DUF59; cl00941 382638003463 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 382638003464 recombination protein F; Reviewed; Region: recF; PRK00064 382638003465 AAA domain; Region: AAA_21; pfam13304 382638003466 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 382638003467 Walker B; other site 382638003468 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 382638003469 D-loop; other site 382638003470 H-loop/switch region; other site 382638003471 aspartate-semialdehyde dehydrogenase (peptidoglycan organisms); Region: asd_B; TIGR01296 382638003472 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638003473 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 382638003474 histidyl-tRNA synthetase; Region: hisS; TIGR00442 382638003475 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 ATP-dependent...; Region: HisRS-like_core; cd00773 382638003476 dimer interface [polypeptide binding]; other site 382638003477 motif 1; other site 382638003478 active site 382638003479 motif 2; other site 382638003480 motif 3; other site 382638003481 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 382638003482 anticodon binding site; other site 382638003483 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 382638003484 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 382638003485 putative active site [active] 382638003486 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 382638003487 catalytic tetrad [active] 382638003488 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 382638003489 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 382638003490 elongation factor G; Reviewed; Region: PRK00007 382638003491 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 382638003492 G1 box; other site 382638003493 putative GEF interaction site [polypeptide binding]; other site 382638003494 GTP/Mg2+ binding site [chemical binding]; other site 382638003495 Switch I region; other site 382638003496 G2 box; other site 382638003497 G3 box; other site 382638003498 Switch II region; other site 382638003499 G4 box; other site 382638003500 G5 box; other site 382638003501 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 382638003502 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 382638003503 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 382638003504 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 382638003505 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 382638003506 S17 interaction site [polypeptide binding]; other site 382638003507 S8 interaction site; other site 382638003508 16S rRNA interaction site [nucleotide binding]; other site 382638003509 streptomycin interaction site [chemical binding]; other site 382638003510 23S rRNA interaction site [nucleotide binding]; other site 382638003511 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 382638003512 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 382638003513 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; cl04593 382638003514 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 382638003515 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 382638003516 RPB11 interaction site [polypeptide binding]; other site 382638003517 RPB12 interaction site [polypeptide binding]; other site 382638003518 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 382638003519 RPB3 interaction site [polypeptide binding]; other site 382638003520 RPB1 interaction site [polypeptide binding]; other site 382638003521 RPB11 interaction site [polypeptide binding]; other site 382638003522 RPB10 interaction site [polypeptide binding]; other site 382638003523 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 382638003524 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 382638003525 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 382638003526 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 382638003527 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 382638003528 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 382638003529 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 382638003530 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 382638003531 DNA binding site [nucleotide binding] 382638003532 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 382638003533 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 382638003534 core dimer interface [polypeptide binding]; other site 382638003535 peripheral dimer interface [polypeptide binding]; other site 382638003536 L10 interface [polypeptide binding]; other site 382638003537 L11 interface [polypeptide binding]; other site 382638003538 putative EF-Tu interaction site [polypeptide binding]; other site 382638003539 putative EF-G interaction site [polypeptide binding]; other site 382638003540 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 382638003541 23S rRNA interface [nucleotide binding]; other site 382638003542 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 382638003543 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 382638003544 mRNA/rRNA interface [nucleotide binding]; other site 382638003545 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 382638003546 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 382638003547 23S rRNA interface [nucleotide binding]; other site 382638003548 L7/L12 interface [polypeptide binding]; other site 382638003549 putative thiostrepton binding site; other site 382638003550 L25 interface [polypeptide binding]; other site 382638003551 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 382638003552 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 382638003553 putative homodimer interface [polypeptide binding]; other site 382638003554 KOW motif; Region: KOW; cl00354 382638003555 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 382638003556 elongation factor Tu; Reviewed; Region: PRK00049 382638003557 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 382638003558 G1 box; other site 382638003559 GEF interaction site [polypeptide binding]; other site 382638003560 GTP/Mg2+ binding site [chemical binding]; other site 382638003561 Switch I region; other site 382638003562 G2 box; other site 382638003563 G3 box; other site 382638003564 Switch II region; other site 382638003565 G4 box; other site 382638003566 G5 box; other site 382638003567 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 382638003568 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 382638003569 Antibiotic Binding Site [chemical binding]; other site 382638003570 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 382638003571 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 382638003572 Walker A/P-loop; other site 382638003573 ATP binding site [chemical binding]; other site 382638003574 Q-loop/lid; other site 382638003575 ABC transporter signature motif; other site 382638003576 Walker B; other site 382638003577 D-loop; other site 382638003578 H-loop/switch region; other site 382638003579 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 382638003580 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 382638003581 ATP synthase subunit C; Region: ATP-synt_C; cl00466 382638003582 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 382638003583 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 382638003584 oligomer interface [polypeptide binding]; other site 382638003585 RNA binding site [nucleotide binding]; other site 382638003586 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 382638003587 oligomer interface [polypeptide binding]; other site 382638003588 RNA binding site [nucleotide binding]; other site 382638003589 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 382638003590 putative nucleic acid binding region [nucleotide binding]; other site 382638003591 G-X-X-G motif; other site 382638003592 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 382638003593 RNA binding site [nucleotide binding]; other site 382638003594 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 382638003595 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 382638003596 Organic solvent tolerance protein; Region: OstA_C; pfam04453 382638003597 RDD family; Region: RDD; cl00746 382638003598 phosphoribosylamine--glycine ligase; Region: purD; TIGR00877 382638003599 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 382638003600 ATP-grasp domain; Region: ATP-grasp_4; cl03087 382638003601 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 382638003602 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 382638003603 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 382638003604 Walker A/P-loop; other site 382638003605 ATP binding site [chemical binding]; other site 382638003606 Q-loop/lid; other site 382638003607 ABC transporter signature motif; other site 382638003608 Walker B; other site 382638003609 D-loop; other site 382638003610 H-loop/switch region; other site 382638003611 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 382638003612 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 382638003613 catalytic residue [active] 382638003614 putative FPP diphosphate binding site; other site 382638003615 putative FPP binding hydrophobic cleft; other site 382638003616 dimer interface [polypeptide binding]; other site 382638003617 putative IPP diphosphate binding site; other site 382638003618 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 382638003619 FAD binding domain; Region: FAD_binding_4; pfam01565 382638003620 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 382638003621 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 382638003622 active site residue [active] 382638003623 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 382638003624 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 382638003625 active site 382638003626 CrcB-like protein; Region: CRCB; cl09114 382638003627 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 382638003628 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 382638003629 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 382638003630 Int/Topo IB signature motif; other site 382638003631 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 382638003632 putative DNA binding site [nucleotide binding]; other site 382638003633 putative Zn2+ binding site [ion binding]; other site 382638003634 Helix-turn-helix domains; Region: HTH; cl00088 382638003635 replicative DNA helicase; Provisional; Region: PRK05636 382638003636 DnaB-like helicase C terminal domain; Region: DnaB_C; pfam03796 382638003637 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 382638003638 Walker A motif; other site 382638003639 ATP binding site [chemical binding]; other site 382638003640 Walker B motif; other site 382638003641 CHC2 zinc finger; Region: zf-CHC2; cl15369 382638003642 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 382638003643 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 382638003644 active site 382638003645 metal binding site [ion binding]; metal-binding site 382638003646 interdomain interaction site; other site 382638003647 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 382638003648 crystallin beta/gamma motif-containing protein; Region: PHA00657 382638003649 Protein of unknown function (DUF3519); Region: DUF3519; pfam12033 382638003650 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 382638003651 Plant ATP synthase F0; Region: YMF19; cl07975 382638003652 Predicted ATP-dependent Lon-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG4930 382638003653 Protein of unknown function (DUF4043); Region: DUF4043; pfam13252 382638003654 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 382638003655 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5410 382638003656 Phage holin family (Lysis protein S); Region: Phage_holin_3; cl04938 382638003657 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 382638003658 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 382638003659 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 382638003660 catalytic site [active] 382638003661 subunit interface [polypeptide binding]; other site 382638003662 Protein of unknown function (DUF507); Region: DUF507; cl01112 382638003663 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 382638003664 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 382638003665 EamA-like transporter family; Region: EamA; cl01037 382638003666 EamA-like transporter family; Region: EamA; cl01037 382638003667 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 382638003668 dihydropteroate synthase; Region: DHPS; TIGR01496 382638003669 substrate binding pocket [chemical binding]; other site 382638003670 dimer interface [polypeptide binding]; other site 382638003671 inhibitor binding site; inhibition site 382638003672 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 382638003673 DNA replication regulator; Region: HobA; pfam12163 382638003674 aspartate kinase; Reviewed; Region: PRK06635 382638003675 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 382638003676 putative nucleotide binding site [chemical binding]; other site 382638003677 putative catalytic residues [active] 382638003678 putative Mg ion binding site [ion binding]; other site 382638003679 putative aspartate binding site [chemical binding]; other site 382638003680 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 382638003681 putative allosteric regulatory site; other site 382638003682 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 382638003683 putative allosteric regulatory residue; other site 382638003684 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 382638003685 putative active site [active] 382638003686 Ap4A binding site [chemical binding]; other site 382638003687 nudix motif; other site 382638003688 putative metal binding site [ion binding]; other site 382638003689 Cytochrome c; Region: Cytochrom_C; cl11414 382638003690 coproporphyrinogen III oxidase; Provisional; Region: PRK08446 382638003691 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 382638003692 FeS/SAM binding site; other site 382638003693 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 382638003694 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 382638003695 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 382638003696 Outer membrane efflux protein; Region: OEP; pfam02321 382638003697 FixH; Region: FixH; cl01254 382638003698 formyltetrahydrofolate deformylase; Region: PurU; TIGR00655 382638003699 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 382638003700 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 382638003701 active site 382638003702 substrate binding site [chemical binding]; other site 382638003703 cosubstrate binding site; other site 382638003704 catalytic site [active] 382638003705 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 382638003706 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 382638003707 tandem repeat interface [polypeptide binding]; other site 382638003708 oligomer interface [polypeptide binding]; other site 382638003709 active site residues [active] 382638003710 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 382638003711 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 382638003712 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 382638003713 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 382638003714 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 382638003715 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 382638003716 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 382638003717 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 382638003718 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 382638003719 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 382638003720 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 382638003721 putative ligand binding site [chemical binding]; other site 382638003722 peroxidase; Provisional; Region: PRK15000 382638003723 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 382638003724 dimer interface [polypeptide binding]; other site 382638003725 decamer (pentamer of dimers) interface [polypeptide binding]; other site 382638003726 catalytic triad [active] 382638003727 peroxidatic and resolving cysteines [active] 382638003728 NMT1-like family; Region: NMT1_2; cl15260 382638003729 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 382638003730 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 382638003731 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 382638003732 Predicted GTPase [General function prediction only]; Region: COG0218 382638003733 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 382638003734 G1 box; other site 382638003735 GTP/Mg2+ binding site [chemical binding]; other site 382638003736 Switch I region; other site 382638003737 G2 box; other site 382638003738 G3 box; other site 382638003739 Switch II region; other site 382638003740 G4 box; other site 382638003741 G5 box; other site 382638003742 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 382638003743 OstA-like protein; Region: OstA; cl00844 382638003744 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 382638003745 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 382638003746 motif II; other site 382638003747 rare lipoprotein A; Region: rlpA; TIGR00413 382638003748 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 382638003749 Sporulation related domain; Region: SPOR; cl10051 382638003750 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 catalyze...; Region: LT_GEWL; cd00254 382638003751 N-acetyl-D-glucosamine binding site [chemical binding]; other site 382638003752 catalytic residue [active] 382638003753 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 382638003754 putative peptidoglycan binding site; other site 382638003755 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 382638003756 active site 382638003757 riboflavin synthase, alpha subunit; Region: ribE; TIGR00187 382638003758 Lumazine binding domain; Region: Lum_binding; pfam00677 382638003759 Lumazine binding domain; Region: Lum_binding; pfam00677 382638003760 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 382638003761 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 382638003762 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 382638003763 Walker A/P-loop; other site 382638003764 ATP binding site [chemical binding]; other site 382638003765 Q-loop/lid; other site 382638003766 ABC transporter signature motif; other site 382638003767 Walker B; other site 382638003768 D-loop; other site 382638003769 H-loop/switch region; other site 382638003770 NIL domain; Region: NIL; cl09633 382638003771 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 382638003772 lipid A phosphoethanolamine transferase; Reviewed; Region: PRK09598 382638003773 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 382638003774 Sulfatase; Region: Sulfatase; cl10460 382638003775 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 382638003776 active site 382638003777 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 382638003778 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 382638003779 dimer interface [polypeptide binding]; other site 382638003780 active site 382638003781 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 382638003782 catalytic residues [active] 382638003783 substrate binding site [chemical binding]; other site 382638003784 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 382638003785 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 382638003786 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 382638003787 active site 382638003788 phosphorylation site [posttranslational modification] 382638003789 intermolecular recognition site; other site 382638003790 dimerization interface [polypeptide binding]; other site 382638003791 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 382638003792 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 382638003793 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 382638003794 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 382638003795 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 382638003796 TrbC/VIRB2 family; Region: TrbC; cl01583 382638003797 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 382638003798 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 382638003799 Ligand Binding Site [chemical binding]; other site 382638003800 DNA primase, catalytic core; Region: dnaG; TIGR01391 382638003801 CHC2 zinc finger; Region: zf-CHC2; cl15369 382638003802 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 382638003803 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 382638003804 active site 382638003805 metal binding site [ion binding]; metal-binding site 382638003806 interdomain interaction site; other site 382638003807 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 382638003808 oligomerisation interface [polypeptide binding]; other site 382638003809 mobile loop; other site 382638003810 roof hairpin; other site 382638003811 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 382638003812 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 382638003813 ring oligomerisation interface [polypeptide binding]; other site 382638003814 ATP/Mg binding site [chemical binding]; other site 382638003815 stacking interactions; other site 382638003816 hinge regions; other site 382638003817 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 382638003818 ParA-like protein; Provisional; Region: PHA02518 382638003819 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 382638003820 P-loop; other site 382638003821 Magnesium ion binding site [ion binding]; other site 382638003822 Protein of unknown function DUF45; Region: DUF45; cl00636 382638003823 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 382638003824 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 382638003825 homodimer interface [polypeptide binding]; other site 382638003826 substrate-cofactor binding pocket; other site 382638003827 catalytic residue [active] 382638003828 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 382638003829 DNA polymerase I; Region: pola; TIGR00593 382638003830 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 382638003831 active site 382638003832 metal binding site 1 [ion binding]; metal-binding site 382638003833 putative 5' ssDNA interaction site; other site 382638003834 metal binding site 3; metal-binding site 382638003835 metal binding site 2 [ion binding]; metal-binding site 382638003836 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 382638003837 putative DNA binding site [nucleotide binding]; other site 382638003838 putative metal binding site [ion binding]; other site 382638003839 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 382638003840 active site 382638003841 substrate binding site [chemical binding]; other site 382638003842 catalytic site [active] 382638003843 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 382638003844 active site 382638003845 DNA binding site [nucleotide binding] 382638003846 catalytic site [active] 382638003847 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3421 382638003848 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 382638003849 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 382638003850 Type III restriction/modification enzyme methylation subunit; Region: TypeIII_RM_meth; pfam12564 382638003851 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 382638003852 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638003853 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638003854 META domain; Region: META; cl01245 382638003855 Protein of unknown function (DUF330); Region: DUF330; cl01135 382638003856 mce related protein; Region: MCE; pfam02470 382638003857 Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; Region: SPEC; cl02488 382638003858 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 382638003859 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 382638003860 Walker A/P-loop; other site 382638003861 ATP binding site [chemical binding]; other site 382638003862 Q-loop/lid; other site 382638003863 ABC transporter signature motif; other site 382638003864 Walker B; other site 382638003865 D-loop; other site 382638003866 H-loop/switch region; other site 382638003867 Permease; Region: Permease; cl00510 382638003868 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 382638003869 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 382638003870 biotin synthase; Provisional; Region: PRK08508 382638003871 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 382638003872 FeS/SAM binding site; other site 382638003873 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 382638003874 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 382638003875 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 382638003876 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 382638003877 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 382638003878 thymidylate kinase; Validated; Region: tmk; PRK00698 382638003879 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 382638003880 TMP-binding site; other site 382638003881 ATP-binding site [chemical binding]; other site 382638003882 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 382638003883 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 382638003884 active site 382638003885 (T/H)XGH motif; other site 382638003886 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 382638003887 Flavoprotein; Region: Flavoprotein; cl08021 382638003888 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK08515 382638003889 SAF domain; Region: SAF; cl00555 382638003890 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 382638003891 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 382638003892 Family description; Region: UvrD_C_2; cl15862 382638003893 Tetratricopeptide repeat; Region: TPR_16; pfam13432 382638003894 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 382638003895 binding surface 382638003896 TPR motif; other site 382638003897 seryl-tRNA synthetase; Provisional; Region: PRK05431 382638003898 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 382638003899 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme bound...; Region: SerRS_core; cd00770 382638003900 dimer interface [polypeptide binding]; other site 382638003901 active site 382638003902 motif 1; other site 382638003903 motif 2; other site 382638003904 motif 3; other site 382638003905 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 382638003906 active site 382638003907 catalytic triad [active] 382638003908 dimer interface [polypeptide binding]; other site 382638003909 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 382638003910 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 382638003911 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 382638003912 S-adenosylmethionine binding site [chemical binding]; other site 382638003913 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 382638003914 uncharacterized protein, YigZ family; Region: IMPACT_YIGZ; TIGR00257 382638003915 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 382638003916 ABC-2 type transporter; Region: ABC2_membrane; cl11417 382638003917 Predicted membrane protein [Function unknown]; Region: COG1511 382638003918 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 382638003919 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 382638003920 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 382638003921 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 382638003922 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 382638003923 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 382638003924 Domain of unknown function DUF21; Region: DUF21; pfam01595 382638003925 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 382638003926 Transporter associated domain; Region: CorC_HlyC; cl08393 382638003927 Phosphate transporter family; Region: PHO4; cl00396 382638003928 Phosphate transporter family; Region: PHO4; cl00396 382638003929 NifU-like domain; Region: NifU; cl00484 382638003930 UDP-N-acetylmuramyl-tripeptide synthetase; Region: murE; TIGR01085 382638003931 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 382638003932 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 382638003933 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 382638003934 putative active site [active] 382638003935 transaldolase; Provisional; Region: PRK03903 382638003936 catalytic residue [active] 382638003937 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 382638003938 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 382638003939 5S rRNA interface [nucleotide binding]; other site 382638003940 CTC domain interface [polypeptide binding]; other site 382638003941 L16 interface [polypeptide binding]; other site 382638003942 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 382638003943 putative active site [active] 382638003944 catalytic residue [active] 382638003945 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 382638003946 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 382638003947 Arginase family; Region: Arginase; cl00306 382638003948 Amino acid transporters [Amino acid transport and metabolism]; Region: LysP; COG0833 382638003949 Amino acid transporters [Amino acid transport and metabolism]; Region: LysP; COG0833 382638003950 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 382638003951 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 382638003952 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638003953 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 382638003954 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 382638003955 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 382638003956 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 382638003957 Walker A/P-loop; other site 382638003958 ATP binding site [chemical binding]; other site 382638003959 Q-loop/lid; other site 382638003960 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 382638003961 ABC transporter signature motif; other site 382638003962 Walker B; other site 382638003963 D-loop; other site 382638003964 H-loop/switch region; other site 382638003965 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 382638003966 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 382638003967 Domain of unknown function (DUF814); Region: DUF814; pfam05670 382638003968 DNA polymerase III subunit epsilon; Provisional; Region: PRK08517 382638003969 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 382638003970 active site 382638003971 substrate binding site [chemical binding]; other site 382638003972 catalytic site [active] 382638003973 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 382638003974 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 382638003975 substrate binding site [chemical binding]; other site 382638003976 hexamer interface [polypeptide binding]; other site 382638003977 metal binding site [ion binding]; metal-binding site 382638003978 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 382638003979 active site 382638003980 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 382638003981 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 382638003982 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 382638003983 Thymidylate synthase complementing protein; Region: Thy1; cl03630 382638003984 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 382638003985 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 382638003986 glutaminase active site [active] 382638003987 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 382638003988 dimer interface [polypeptide binding]; other site 382638003989 active site 382638003990 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 382638003991 dimer interface [polypeptide binding]; other site 382638003992 active site 382638003993 Protein of unknown function (DUF2443); Region: DUF2443; pfam10398 382638003994 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 382638003995 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 382638003996 Initiator Replication protein; Region: Rep_3; cl03080