-- dump date 20120504_151326 -- class Genbank::misc_feature -- table misc_feature_note -- id note 416870000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 416870000002 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 416870000003 Walker A motif; other site 416870000004 ATP binding site [chemical binding]; other site 416870000005 Walker B motif; other site 416870000006 arginine finger; other site 416870000007 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 416870000008 DnaA box-binding interface [nucleotide binding]; other site 416870000009 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 416870000010 DNA polymerase III beta subunit; Region: POL3Bc; smart00480 416870000011 putative DNA binding surface [nucleotide binding]; other site 416870000012 dimer interface [polypeptide binding]; other site 416870000013 beta-clamp/clamp loader binding surface; other site 416870000014 beta-clamp/translesion DNA polymerase binding surface; other site 416870000015 ATP-dependent nuclease, subunit B [DNA replication, recombination, and repair]; Region: AddB; COG3857 416870000016 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 416870000017 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 416870000018 Bacterial protein of unknown function (DUF951); Region: DUF951; cl01864 416870000019 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 416870000020 non-specific DNA binding site [nucleotide binding]; other site 416870000021 salt bridge; other site 416870000022 sequence-specific DNA binding site [nucleotide binding]; other site 416870000023 GTP-binding protein YchF; Reviewed; Region: PRK09601 416870000024 YchF GTPase; Region: YchF; cd01900 416870000025 G1 box; other site 416870000026 GTP/Mg2+ binding site [chemical binding]; other site 416870000027 Switch I region; other site 416870000028 G2 box; other site 416870000029 Switch II region; other site 416870000030 G3 box; other site 416870000031 G4 box; other site 416870000032 G5 box; other site 416870000033 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 416870000034 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 416870000035 non-specific DNA binding site [nucleotide binding]; other site 416870000036 salt bridge; other site 416870000037 sequence-specific DNA binding site [nucleotide binding]; other site 416870000038 topology modulation protein; Reviewed; Region: PRK08118 416870000039 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 416870000040 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 416870000041 putative active site [active] 416870000042 catalytic residue [active] 416870000043 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 416870000044 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 416870000045 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 416870000046 ATP binding site [chemical binding]; other site 416870000047 putative Mg++ binding site [ion binding]; other site 416870000048 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 416870000049 nucleotide binding region [chemical binding]; other site 416870000050 ATP-binding site [chemical binding]; other site 416870000051 TRCF domain; Region: TRCF; cl04088 416870000052 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 416870000053 Septum formation initiator; Region: DivIC; cl11433 416870000054 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 416870000055 RNA binding site [nucleotide binding]; other site 416870000056 Beta-lactamase class A [Defense mechanisms]; Region: PenP; COG2367 416870000057 SH3-like domain; Region: SH3_8; pfam13457 416870000058 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 416870000059 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 416870000060 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 416870000061 Ligand Binding Site [chemical binding]; other site 416870000062 B3/4 domain; Region: B3_4; cl11458 416870000063 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 416870000064 active site 416870000065 FtsH Extracellular; Region: FtsH_ext; pfam06480 416870000066 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 416870000067 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 416870000068 Walker A motif; other site 416870000069 ATP binding site [chemical binding]; other site 416870000070 Walker B motif; other site 416870000071 arginine finger; other site 416870000072 Peptidase family M41; Region: Peptidase_M41; pfam01434 416870000073 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 416870000074 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 416870000075 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 416870000076 active site 416870000077 P-loop; other site 416870000078 phosphorylation site [posttranslational modification] 416870000079 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 416870000080 active site 416870000081 P-loop; other site 416870000082 phosphorylation site [posttranslational modification] 416870000083 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 416870000084 Helix-turn-helix domains; Region: HTH; cl00088 416870000085 PTS_IIB: subunit IIB of enzyme II (EII) is the central energy-coupling domain of the phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In the multienzyme PTS complex, EII is a carbohydrate-specific permease consisting of two cytoplasmic...; Region: PTS_IIB; cl10014 416870000086 P-loop; other site 416870000087 active site 416870000088 phosphorylation site [posttranslational modification] 416870000089 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 416870000090 active site 416870000091 phosphorylation site [posttranslational modification] 416870000092 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 416870000093 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 416870000094 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 416870000095 Phage associated DNA primase [General function prediction only]; Region: COG3378 416870000096 D5 N terminal like; Region: D5_N; cl07360 416870000097 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 416870000098 Prim_Pol: Primase-polymerase (primpol) domain of the type found in bifunctional replicases from archaeal plasmids, including ORF904 protein of the crenarchaeal plasmid pRN1 from Sulfolobus islandicus (pRN1 primpol). These primpol domains belong to the...; Region: Prim_Pol; cd04859 416870000099 polymerase nucleotide-binding site; other site 416870000100 DNA-binding residues [nucleotide binding]; DNA binding site 416870000101 nucleotide binding site [chemical binding]; other site 416870000102 primase nucleotide-binding site [nucleotide binding]; other site 416870000103 Primase C terminal 1 (PriCT-1); Region: PriCT_1; cl07362 416870000104 Protein of unknown function (DUF1655); Region: DUF1655; pfam07868 416870000105 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 416870000106 non-specific DNA binding site [nucleotide binding]; other site 416870000107 salt bridge; other site 416870000108 sequence-specific DNA binding site [nucleotide binding]; other site 416870000109 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 416870000110 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 416870000111 salt bridge; other site 416870000112 non-specific DNA binding site [nucleotide binding]; other site 416870000113 sequence-specific DNA binding site [nucleotide binding]; other site 416870000114 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cl00089 416870000115 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 416870000116 Integrase core domain; Region: rve; cl01316 416870000117 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 416870000118 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 416870000119 Walker A motif; other site 416870000120 ATP binding site [chemical binding]; other site 416870000121 Walker B motif; other site 416870000122 arginine finger; other site 416870000123 Enterocin A Immunity; Region: EntA_Immun; pfam08951 416870000124 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 416870000125 Int/Topo IB signature motif; other site 416870000126 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 416870000127 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 416870000128 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416870000129 Coenzyme A binding pocket [chemical binding]; other site 416870000130 TM2 domain; Region: TM2; cl00984 416870000131 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 416870000132 Sulfate transporter family; Region: Sulfate_transp; cl15842 416870000133 Sulfate transporter family; Region: Sulfate_transp; cl15842 416870000134 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 416870000135 Transposase, Mutator family; Region: Transposase_mut; pfam00872 416870000136 MULE transposase domain; Region: MULE; pfam10551 416870000137 Predicted acetyltransferase [General function prediction only]; Region: COG3153 416870000138 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416870000139 Coenzyme A binding pocket [chemical binding]; other site 416870000140 aromatic amino acid aminotransferase; Validated; Region: PRK07309 416870000141 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 416870000142 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416870000143 homodimer interface [polypeptide binding]; other site 416870000144 catalytic residue [active] 416870000145 Recombination protein O N terminal; Region: RecO_N; cl15812 416870000146 DNA repair protein RecO; Region: reco; TIGR00613 416870000147 Recombination protein O C terminal; Region: RecO_C; pfam02565 416870000148 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 416870000149 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 416870000150 MFS/sugar transport protein; Region: MFS_2; pfam13347 416870000151 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 416870000152 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870000153 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 416870000154 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 416870000155 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 416870000156 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 416870000157 E3 interaction surface; other site 416870000158 lipoyl attachment site [posttranslational modification]; other site 416870000159 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 416870000160 E3 interaction surface; other site 416870000161 lipoyl attachment site [posttranslational modification]; other site 416870000162 e3 binding domain; Region: E3_binding; pfam02817 416870000163 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 416870000164 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 416870000165 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 416870000166 TPP binding site [chemical binding]; other site 416870000167 alpha subunit interface [polypeptide binding]; other site 416870000168 heterodimer interface [polypeptide binding]; other site 416870000169 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 416870000170 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 416870000171 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 416870000172 tetramer interface [polypeptide binding]; other site 416870000173 TPP-binding site [chemical binding]; other site 416870000174 heterodimer interface [polypeptide binding]; other site 416870000175 phosphorylation loop region [posttranslational modification] 416870000176 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 416870000177 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 416870000178 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 416870000179 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 416870000180 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 416870000181 active site 416870000182 catalytic site [active] 416870000183 metal binding site [ion binding]; metal-binding site 416870000184 dimer interface [polypeptide binding]; other site 416870000185 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 416870000186 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 416870000187 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 416870000188 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 416870000189 active site 416870000190 HIGH motif; other site 416870000191 dimer interface [polypeptide binding]; other site 416870000192 KMSKS motif; other site 416870000193 OsmC-like protein; Region: OsmC; cl00767 416870000194 Amino acid permease; Region: AA_permease_2; pfam13520 416870000195 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 416870000196 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 416870000197 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 416870000198 active site 416870000199 motif I; other site 416870000200 motif II; other site 416870000201 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 416870000202 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 416870000203 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 416870000204 Walker A/P-loop; other site 416870000205 ATP binding site [chemical binding]; other site 416870000206 Q-loop/lid; other site 416870000207 ABC transporter signature motif; other site 416870000208 Walker B; other site 416870000209 D-loop; other site 416870000210 H-loop/switch region; other site 416870000211 ABC transporter; Region: ABC_tran_2; pfam12848 416870000212 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 416870000213 yiaA/B two helix domain; Region: YiaAB; cl01759 416870000214 short chain dehydrogenase; Validated; Region: PRK06182 416870000215 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 416870000216 NADP binding site [chemical binding]; other site 416870000217 active site 416870000218 steroid binding site; other site 416870000219 Helix-turn-helix domains; Region: HTH; cl00088 416870000220 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416870000221 Helix-turn-helix domains; Region: HTH; cl00088 416870000222 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 416870000223 Helix-turn-helix domains; Region: HTH; cl00088 416870000224 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 416870000225 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 416870000226 homodimer interface [polypeptide binding]; other site 416870000227 substrate-cofactor binding pocket; other site 416870000228 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416870000229 catalytic residue [active] 416870000230 short chain dehydrogenase; Validated; Region: PRK06182 416870000231 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 416870000232 NADP binding site [chemical binding]; other site 416870000233 active site 416870000234 steroid binding site; other site 416870000235 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 416870000236 Ligand Binding Site [chemical binding]; other site 416870000237 Predicted esterase [General function prediction only]; Region: COG0400 416870000238 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 416870000239 Zn binding site [ion binding]; other site 416870000240 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 416870000241 Zn binding site [ion binding]; other site 416870000242 Flavin Reductases; Region: FlaRed; cl00801 416870000243 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 416870000244 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 416870000245 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 416870000246 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 416870000247 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 416870000248 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4705 416870000249 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 416870000250 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 416870000251 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 416870000252 ParB-like partition proteins; Region: parB_part; TIGR00180 416870000253 ParB-like nuclease domain; Region: ParBc; cl02129 416870000254 KorB domain; Region: KorB; pfam08535 416870000255 recombination factor protein RarA; Reviewed; Region: PRK13342 416870000256 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 416870000257 Walker A motif; other site 416870000258 ATP binding site [chemical binding]; other site 416870000259 Walker B motif; other site 416870000260 arginine finger; other site 416870000261 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 416870000262 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 416870000263 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416870000264 Coenzyme A binding pocket [chemical binding]; other site 416870000265 Protein of unknown function (DUF3013); Region: DUF3013; pfam11217 416870000266 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 416870000267 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 416870000268 Walker A/P-loop; other site 416870000269 ATP binding site [chemical binding]; other site 416870000270 Q-loop/lid; other site 416870000271 ABC transporter signature motif; other site 416870000272 Walker B; other site 416870000273 D-loop; other site 416870000274 H-loop/switch region; other site 416870000275 ABC transporter; Region: ABC_tran_2; pfam12848 416870000276 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 416870000277 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 416870000278 S-adenosylmethionine binding site [chemical binding]; other site 416870000279 Domain of unknown function (DUF1905); Region: DUF1905; pfam08922 416870000280 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 416870000281 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 416870000282 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 416870000283 S-adenosylmethionine binding site [chemical binding]; other site 416870000284 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 416870000285 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 416870000286 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 416870000287 putative active site [active] 416870000288 putative metal binding site [ion binding]; other site 416870000289 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 416870000290 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 416870000291 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 416870000292 synthetase active site [active] 416870000293 NTP binding site [chemical binding]; other site 416870000294 metal binding site [ion binding]; metal-binding site 416870000295 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 416870000296 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 416870000297 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 416870000298 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 416870000299 Ligand binding site; other site 416870000300 Putative Catalytic site; other site 416870000301 DXD motif; other site 416870000302 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 416870000303 putative active site [active] 416870000304 dimerization interface [polypeptide binding]; other site 416870000305 putative tRNAtyr binding site [nucleotide binding]; other site 416870000306 Protein of unknown function (DUF445); Region: DUF445; pfam04286 416870000307 Protein of unknown function (DUF1211); Region: DUF1211; cl01421 416870000308 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 416870000309 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 416870000310 amino acid transporter; Region: 2A0306; TIGR00909 416870000311 Spore germination protein; Region: Spore_permease; cl15802 416870000312 Spore germination protein; Region: Spore_permease; cl15802 416870000313 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 416870000314 putative acyl-acceptor binding pocket; other site 416870000315 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 416870000316 Helix-turn-helix domains; Region: HTH; cl00088 416870000317 Helix-turn-helix domains; Region: HTH; cl00088 416870000318 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 416870000319 HTH-like domain; Region: HTH_21; pfam13276 416870000320 Integrase core domain; Region: rve; cl01316 416870000321 Integrase core domain; Region: rve_3; cl15866 416870000322 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 416870000323 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 416870000324 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 416870000325 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 416870000326 nucleotide binding region [chemical binding]; other site 416870000327 ATP-binding site [chemical binding]; other site 416870000328 SEC-C motif; Region: SEC-C; pfam02810 416870000329 NeuB family; Region: NeuB; cl00496 416870000330 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 416870000331 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 416870000332 dimerization domain swap beta strand [polypeptide binding]; other site 416870000333 regulatory protein interface [polypeptide binding]; other site 416870000334 active site 416870000335 regulatory phosphorylation site [posttranslational modification]; other site 416870000336 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 416870000337 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 416870000338 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 416870000339 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 416870000340 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 416870000341 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 416870000342 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 416870000343 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 416870000344 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 416870000345 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 416870000346 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 416870000347 Major Facilitator Superfamily; Region: MFS_1; pfam07690 416870000348 putative substrate translocation pore; other site 416870000349 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 416870000350 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 416870000351 Ligand binding site; other site 416870000352 Putative Catalytic site; other site 416870000353 DXD motif; other site 416870000354 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 416870000355 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 416870000356 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 416870000357 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 416870000358 ANP binding site [chemical binding]; other site 416870000359 Substrate Binding Site II [chemical binding]; other site 416870000360 Substrate Binding Site I [chemical binding]; other site 416870000361 argininosuccinate lyase; Provisional; Region: PRK00855 416870000362 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 416870000363 active sites [active] 416870000364 tetramer interface [polypeptide binding]; other site 416870000365 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 416870000366 Major Facilitator Superfamily; Region: MFS_1; pfam07690 416870000367 putative substrate translocation pore; other site 416870000368 Helix-turn-helix domains; Region: HTH; cl00088 416870000369 WHG domain; Region: WHG; pfam13305 416870000370 Ribonuclease P; Region: Ribonuclease_P; cl00457 416870000371 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 416870000372 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 416870000373 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 416870000374 G-X-X-G motif; other site 416870000375 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 416870000376 RxxxH motif; other site 416870000377 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 416870000378 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 416870000379 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 416870000380 active site 416870000381 catalytic tetrad [active] 416870000382 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 416870000383 non-specific DNA binding site [nucleotide binding]; other site 416870000384 salt bridge; other site 416870000385 sequence-specific DNA binding site [nucleotide binding]; other site 416870000386 CAAX protease self-immunity; Region: Abi; cl00558 416870000387 Bacterial protein of unknown function (DUF965); Region: DUF965; cl01857 416870000388 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 416870000389 Protein of unknown function (DUF1292); Region: DUF1292; cl01608 416870000390 Protein of unknown function (DUF1211); Region: DUF1211; cl01421 416870000391 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 416870000392 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870000393 NAD(P) binding site [chemical binding]; other site 416870000394 active site 416870000395 Uncharacterized protein conserved in bacteria (DUF2316); Region: DUF2316; cl01805 416870000396 Short-chain dehydrogenase involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltE; COG3967 416870000397 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870000398 NAD(P) binding site [chemical binding]; other site 416870000399 active site 416870000400 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 416870000401 Helix-turn-helix domains; Region: HTH; cl00088 416870000402 glycogen branching enzyme; Provisional; Region: PRK12313 416870000403 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 416870000404 Alpha amylase catalytic domain found in bacterial and eukaryotic branching enzymes; Region: AmyAc_bac_euk_BE; cd11321 416870000405 active site 416870000406 catalytic site [active] 416870000407 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 416870000408 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 416870000409 putative FMN binding site [chemical binding]; other site 416870000410 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 416870000411 Helix-turn-helix domains; Region: HTH; cl00088 416870000412 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 416870000413 Collagen binding domain; Region: Collagen_bind; pfam05737 416870000414 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 416870000415 non-specific DNA binding site [nucleotide binding]; other site 416870000416 salt bridge; other site 416870000417 sequence-specific DNA binding site [nucleotide binding]; other site 416870000418 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 416870000419 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 416870000420 Protein of unknown function (DUF975); Region: DUF975; cl10504 416870000421 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870000422 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 416870000423 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cl00089 416870000424 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 416870000425 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 416870000426 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 416870000427 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416870000428 homodimer interface [polypeptide binding]; other site 416870000429 catalytic residue [active] 416870000430 CodY GAF-like domain; Region: CodY; pfam06018 416870000431 GTP-sensing transcriptional pleiotropic repressor CodY; Region: codY_Gpos; TIGR02787 416870000432 Helix-turn-helix domains; Region: HTH; cl00088 416870000433 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 416870000434 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 416870000435 Amidase; Region: Amidase; cl11426 416870000436 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 416870000437 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 416870000438 GatB domain; Region: GatB_Yqey; cl11497 416870000439 amidase; Provisional; Region: PRK06529 416870000440 Amidase; Region: Amidase; cl11426 416870000441 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 416870000442 MatE; Region: MatE; cl10513 416870000443 MatE; Region: MatE; cl10513 416870000444 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 416870000445 DNA-binding site [nucleotide binding]; DNA binding site 416870000446 RNA-binding motif; other site 416870000447 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 416870000448 Rhomboid family; Region: Rhomboid; cl11446 416870000449 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 416870000450 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 416870000451 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 416870000452 active site 416870000453 metal binding site [ion binding]; metal-binding site 416870000454 Predicted acetyltransferase involved in intracellular survival and related acetyltransferases [General function prediction only]; Region: Eis; COG4552 416870000455 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 416870000456 Bacterial protein of unknown function (DUF871); Region: DUF871; cl15404 416870000457 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 416870000458 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 416870000459 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 416870000460 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 416870000461 trimer interface [polypeptide binding]; other site 416870000462 active site 416870000463 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 416870000464 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 416870000465 active site 416870000466 metal binding site [ion binding]; metal-binding site 416870000467 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 416870000468 Protein of unknown function (DUF1027); Region: DUF1027; cl09961 416870000469 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14455 416870000470 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 416870000471 FeS/SAM binding site; other site 416870000472 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 416870000473 dimer interface [polypeptide binding]; other site 416870000474 FMN binding site [chemical binding]; other site 416870000475 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 416870000476 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 416870000477 substrate binding pocket [chemical binding]; other site 416870000478 chain length determination region; other site 416870000479 substrate-Mg2+ binding site; other site 416870000480 catalytic residues [active] 416870000481 aspartate-rich region 1; other site 416870000482 active site lid residues [active] 416870000483 aspartate-rich region 2; other site 416870000484 UbiA prenyltransferase family; Region: UbiA; cl00337 416870000485 CAAX protease self-immunity; Region: Abi; cl00558 416870000486 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 416870000487 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 416870000488 G1 box; other site 416870000489 GTP/Mg2+ binding site [chemical binding]; other site 416870000490 Switch I region; other site 416870000491 G2 box; other site 416870000492 G3 box; other site 416870000493 Switch II region; other site 416870000494 G4 box; other site 416870000495 G5 box; other site 416870000496 Nucleoside recognition; Region: Gate; cl00486 416870000497 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 416870000498 Nucleoside recognition; Region: Gate; cl00486 416870000499 FeoA domain; Region: FeoA; cl00838 416870000500 FeoA domain; Region: FeoA; cl00838 416870000501 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 416870000502 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 416870000503 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 416870000504 DAK2 domain; Region: Dak2; cl03685 416870000505 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 416870000506 Asp23 family; Region: Asp23; cl00574 416870000507 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 416870000508 Protein of unknown function (DUF1129); Region: DUF1129; cl11555 416870000509 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 416870000510 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 416870000511 substrate binding site; other site 416870000512 tetramer interface; other site 416870000513 Cupin domain; Region: Cupin_2; cl09118 416870000514 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 416870000515 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 416870000516 NAD binding site [chemical binding]; other site 416870000517 substrate binding site [chemical binding]; other site 416870000518 homodimer interface [polypeptide binding]; other site 416870000519 active site 416870000520 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 416870000521 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 416870000522 NADP binding site [chemical binding]; other site 416870000523 active site 416870000524 putative substrate binding site [chemical binding]; other site 416870000525 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_6; cd04955 416870000526 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 416870000527 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 416870000528 Probable Catalytic site; other site 416870000529 ABC-2 type transporter; Region: ABC2_membrane; cl11417 416870000530 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 416870000531 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 416870000532 Walker A/P-loop; other site 416870000533 ATP binding site [chemical binding]; other site 416870000534 Q-loop/lid; other site 416870000535 ABC transporter signature motif; other site 416870000536 Walker B; other site 416870000537 D-loop; other site 416870000538 H-loop/switch region; other site 416870000539 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 416870000540 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 416870000541 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 416870000542 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 416870000543 active site 416870000544 Rhamnan synthesis protein F; Region: RgpF; cl01529 416870000545 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 416870000546 Ligand binding site; other site 416870000547 Putative Catalytic site; other site 416870000548 DXD motif; other site 416870000549 Uncharacterized conserved protein (DUF2304); Region: DUF2304; cl01034 416870000550 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 416870000551 putative glycosyl transferase; Provisional; Region: PRK10073 416870000552 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 416870000553 active site 416870000554 Protein of unknown function (DUF3184); Region: DUF3184; pfam11380 416870000555 beta-1,6-galactofuranosyltransferase; Provisional; Region: PRK09814 416870000556 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 416870000557 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 416870000558 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870000559 UDP-galactopyranose mutase; Region: GLF; pfam03275 416870000560 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 416870000561 MatE; Region: MatE; cl10513 416870000562 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 416870000563 AtlA is an autolysin found in Gram-positive lactic acid bacteria that degrades bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues. This family includes the AtlA and Aml...; Region: GH25_AtlA-like; cd06522 416870000564 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 416870000565 active site 416870000566 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 416870000567 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 416870000568 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 416870000569 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 416870000570 active site 416870000571 GTPase YqeH; Provisional; Region: PRK13796 416870000572 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 416870000573 GTP/Mg2+ binding site [chemical binding]; other site 416870000574 G4 box; other site 416870000575 G5 box; other site 416870000576 G1 box; other site 416870000577 Switch I region; other site 416870000578 G2 box; other site 416870000579 G3 box; other site 416870000580 Switch II region; other site 416870000581 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_29; cd04688 416870000582 nudix motif; other site 416870000583 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 416870000584 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 416870000585 HflX GTPase family; Region: HflX; cd01878 416870000586 G1 box; other site 416870000587 GTP/Mg2+ binding site [chemical binding]; other site 416870000588 Switch I region; other site 416870000589 G2 box; other site 416870000590 G3 box; other site 416870000591 Switch II region; other site 416870000592 G4 box; other site 416870000593 G5 box; other site 416870000594 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 416870000595 Nicotinic acid mononucleotide adenylyltransferase [Coenzyme metabolism]; Region: NadD; COG1057 416870000596 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 416870000597 active site 416870000598 (T/H)XGH motif; other site 416870000599 Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]; Region: COG1713 416870000600 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 416870000601 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416870000602 Coenzyme A binding pocket [chemical binding]; other site 416870000603 Oligomerisation domain; Region: Oligomerisation; cl00519 416870000604 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 416870000605 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 416870000606 S-adenosylmethionine binding site [chemical binding]; other site 416870000607 hypothetical protein; Provisional; Region: PRK13670 416870000608 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 416870000609 Transcriptional regulator; Region: Transcrip_reg; cl00361 416870000610 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 416870000611 ligand binding site [chemical binding]; other site 416870000612 active site 416870000613 UGI interface [polypeptide binding]; other site 416870000614 catalytic site [active] 416870000615 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 416870000616 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 416870000617 putative NAD(P) binding site [chemical binding]; other site 416870000618 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870000619 NADH(P)-binding; Region: NAD_binding_10; pfam13460 416870000620 NAD(P) binding site [chemical binding]; other site 416870000621 active site 416870000622 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 416870000623 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870000624 NAD(P) binding site [chemical binding]; other site 416870000625 active site 416870000626 mycofactocin system transcriptional regulator; Region: mycofact_TetR; TIGR03968 416870000627 Helix-turn-helix domains; Region: HTH; cl00088 416870000628 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 416870000629 Major Facilitator Superfamily; Region: MFS_1; pfam07690 416870000630 putative substrate translocation pore; other site 416870000631 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 416870000632 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 416870000633 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 416870000634 DNA binding residues [nucleotide binding] 416870000635 putative dimer interface [polypeptide binding]; other site 416870000636 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 416870000637 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 416870000638 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 416870000639 active site 416870000640 motif I; other site 416870000641 motif II; other site 416870000642 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 416870000643 Phosphoglycerate kinase; Region: PGK; pfam00162 416870000644 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 416870000645 substrate binding site [chemical binding]; other site 416870000646 hinge regions; other site 416870000647 ADP binding site [chemical binding]; other site 416870000648 catalytic site [active] 416870000649 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 416870000650 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 416870000651 motif II; other site 416870000652 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 416870000653 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 416870000654 DAK2 domain; Region: Dak2; cl03685 416870000655 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 416870000656 Dipeptidase [Amino acid transport and metabolism]; Region: PepD; COG4690 416870000657 Peptidase family C69; Region: Peptidase_C69; pfam03577 416870000658 ABC-2 type transporter; Region: ABC2_membrane; cl11417 416870000659 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 416870000660 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 416870000661 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 416870000662 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 416870000663 HI0933-like protein; Region: HI0933_like; pfam03486 416870000664 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870000665 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870000666 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 416870000667 putative substrate binding site [chemical binding]; other site 416870000668 putative ATP binding site [chemical binding]; other site 416870000669 Protein of unknown function (DUF1398); Region: DUF1398; cl11576 416870000670 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 416870000671 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 416870000672 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 416870000673 Walker A/P-loop; other site 416870000674 ATP binding site [chemical binding]; other site 416870000675 Q-loop/lid; other site 416870000676 ABC transporter signature motif; other site 416870000677 Walker B; other site 416870000678 D-loop; other site 416870000679 H-loop/switch region; other site 416870000680 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 416870000681 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 416870000682 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and...; Region: ABCC_Glucan_exporter_like; cd03254 416870000683 Walker A/P-loop; other site 416870000684 ATP binding site [chemical binding]; other site 416870000685 Q-loop/lid; other site 416870000686 ABC transporter signature motif; other site 416870000687 Walker B; other site 416870000688 D-loop; other site 416870000689 H-loop/switch region; other site 416870000690 Domain of unknown function (DUF697); Region: DUF697; cl12064 416870000691 putative oxidoreductase; Provisional; Region: PRK10206 416870000692 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870000693 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 416870000694 S-Ribosylhomocysteinase (LuxS); Region: LuxS; cl00802 416870000695 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 416870000696 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 416870000697 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 416870000698 active site 416870000699 catalytic tetrad [active] 416870000700 Isochorismatase family; Region: Isochorismatase; pfam00857 416870000701 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 416870000702 catalytic triad [active] 416870000703 conserved cis-peptide bond; other site 416870000704 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 416870000705 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 416870000706 putative peptidoglycan binding site; other site 416870000707 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 416870000708 putative peptidoglycan binding site; other site 416870000709 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 416870000710 putative peptidoglycan binding site; other site 416870000711 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 416870000712 ATP cone domain; Region: ATP-cone; pfam03477 416870000713 Class III ribonucleotide reductase; Region: RNR_III; cd01675 416870000714 effector binding site; other site 416870000715 active site 416870000716 Zn binding site [ion binding]; other site 416870000717 glycine loop; other site 416870000718 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 416870000719 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 416870000720 FeS/SAM binding site; other site 416870000721 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 416870000722 Cytochrome c552; Region: Cytochrom_C552; pfam02335 416870000723 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13642 416870000724 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 416870000725 Walker A/P-loop; other site 416870000726 ATP binding site [chemical binding]; other site 416870000727 Q-loop/lid; other site 416870000728 ABC transporter signature motif; other site 416870000729 Walker B; other site 416870000730 D-loop; other site 416870000731 H-loop/switch region; other site 416870000732 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13643 416870000733 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 416870000734 Walker A/P-loop; other site 416870000735 ATP binding site [chemical binding]; other site 416870000736 Q-loop/lid; other site 416870000737 ABC transporter signature motif; other site 416870000738 Walker B; other site 416870000739 D-loop; other site 416870000740 H-loop/switch region; other site 416870000741 Cobalt transport protein; Region: CbiQ; cl00463 416870000742 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 416870000743 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 416870000744 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 416870000745 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 416870000746 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 416870000747 putative trimer interface [polypeptide binding]; other site 416870000748 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 416870000749 putative CoA binding site [chemical binding]; other site 416870000750 putative trimer interface [polypeptide binding]; other site 416870000751 putative CoA binding site [chemical binding]; other site 416870000752 M20 Peptidase Aminoacyclase-1 YkuR-like proteins, including YkuR and Ama/HipO/HyuC proteins; Region: M20_Acy1_YkuR_like; cd05670 416870000753 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 416870000754 metal binding site [ion binding]; metal-binding site 416870000755 putative dimer interface [polypeptide binding]; other site 416870000756 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 416870000757 Glucosyl transferase GtrII; Region: Glucos_trans_II; cl10304 416870000758 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 416870000759 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 416870000760 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 416870000761 RNA binding surface [nucleotide binding]; other site 416870000762 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 416870000763 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 416870000764 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 416870000765 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 416870000766 RNA binding site [nucleotide binding]; other site 416870000767 SprT homologues; Region: SprT; cl01182 416870000768 hypothetical protein; Provisional; Region: PRK04351 416870000769 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 416870000770 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 416870000771 active site 416870000772 purine riboside binding site [chemical binding]; other site 416870000773 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 416870000774 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 416870000775 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 416870000776 DNA binding residues [nucleotide binding] 416870000777 putative dimer interface [polypeptide binding]; other site 416870000778 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 416870000779 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 416870000780 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 416870000781 Protein of unknown function (DUF1447); Region: DUF1447; cl11492 416870000782 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 416870000783 Glycoprotease family; Region: Peptidase_M22; pfam00814 416870000784 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 416870000785 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416870000786 Coenzyme A binding pocket [chemical binding]; other site 416870000787 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416870000788 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 416870000789 Coenzyme A binding pocket [chemical binding]; other site 416870000790 UGMP family protein; Validated; Region: PRK09604 416870000791 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 416870000792 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 416870000793 NMT1-like family; Region: NMT1_2; cl15260 416870000794 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 416870000795 ABC-type phosphate/phosphonate transport system. Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all...; Region: ABC_PhnC_transporter; cd03256 416870000796 Walker A/P-loop; other site 416870000797 ATP binding site [chemical binding]; other site 416870000798 Q-loop/lid; other site 416870000799 ABC transporter signature motif; other site 416870000800 Walker B; other site 416870000801 D-loop; other site 416870000802 H-loop/switch region; other site 416870000803 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 416870000804 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 416870000805 dimer interface [polypeptide binding]; other site 416870000806 conserved gate region; other site 416870000807 putative PBP binding loops; other site 416870000808 ABC-ATPase subunit interface; other site 416870000809 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 416870000810 dimer interface [polypeptide binding]; other site 416870000811 conserved gate region; other site 416870000812 ABC-ATPase subunit interface; other site 416870000813 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 416870000814 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 416870000815 active site 416870000816 metal binding site [ion binding]; metal-binding site 416870000817 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 416870000818 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 416870000819 dimer interface [polypeptide binding]; other site 416870000820 catalytic triad [active] 416870000821 peroxidatic and resolving cysteines [active] 416870000822 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 416870000823 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 416870000824 Zn binding site [ion binding]; other site 416870000825 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 416870000826 putative substrate translocation pore; other site 416870000827 Major Facilitator Superfamily; Region: MFS_1; pfam07690 416870000828 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 416870000829 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 416870000830 Cation efflux family; Region: Cation_efflux; cl00316 416870000831 Helix-turn-helix domains; Region: HTH; cl00088 416870000832 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 416870000833 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 416870000834 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 416870000835 Walker A/P-loop; other site 416870000836 ATP binding site [chemical binding]; other site 416870000837 Q-loop/lid; other site 416870000838 ABC transporter signature motif; other site 416870000839 Walker B; other site 416870000840 D-loop; other site 416870000841 H-loop/switch region; other site 416870000842 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 416870000843 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 416870000844 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. 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 organic...; Region: ABCC_MsbA; cd03251 416870000845 Walker A/P-loop; other site 416870000846 ATP binding site [chemical binding]; other site 416870000847 Q-loop/lid; other site 416870000848 ABC transporter signature motif; other site 416870000849 Walker B; other site 416870000850 D-loop; other site 416870000851 H-loop/switch region; other site 416870000852 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 416870000853 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 416870000854 hinge; other site 416870000855 active site 416870000856 Uncharacterized protein conserved in bacteria (DUF2128); Region: DUF2128; cl01839 416870000857 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 416870000858 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 416870000859 Walker A/P-loop; other site 416870000860 ATP binding site [chemical binding]; other site 416870000861 Q-loop/lid; other site 416870000862 ABC transporter signature motif; other site 416870000863 Walker B; other site 416870000864 D-loop; other site 416870000865 H-loop/switch region; other site 416870000866 H+ Antiporter protein; Region: 2A0121; TIGR00900 416870000867 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 416870000868 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 416870000869 putative deacylase active site [active] 416870000870 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 416870000871 NMT1-like family; Region: NMT1_2; cl15260 416870000872 NMT1-like family; Region: NMT1_2; cl15260 416870000873 NMT1-like family; Region: NMT1_2; cl15260 416870000874 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870000875 acetoin reductases; Region: 23BDH; TIGR02415 416870000876 NAD(P) binding site [chemical binding]; other site 416870000877 active site 416870000878 NMT1-like family; Region: NMT1_2; cl15260 416870000879 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 416870000880 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 416870000881 Walker A/P-loop; other site 416870000882 ATP binding site [chemical binding]; other site 416870000883 Q-loop/lid; other site 416870000884 ABC transporter signature motif; other site 416870000885 Walker B; other site 416870000886 D-loop; other site 416870000887 H-loop/switch region; other site 416870000888 NIL domain; Region: NIL; cl09633 416870000889 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 416870000890 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 416870000891 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 416870000892 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 416870000893 Walker A/P-loop; other site 416870000894 ATP binding site [chemical binding]; other site 416870000895 Q-loop/lid; other site 416870000896 ABC transporter signature motif; other site 416870000897 Walker B; other site 416870000898 D-loop; other site 416870000899 H-loop/switch region; other site 416870000900 ATP-binding cassette cobalt transporter; Region: DUF3744; pfam12558 416870000901 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 416870000902 Walker A/P-loop; other site 416870000903 ATP binding site [chemical binding]; other site 416870000904 Q-loop/lid; other site 416870000905 ABC transporter signature motif; other site 416870000906 Walker B; other site 416870000907 D-loop; other site 416870000908 H-loop/switch region; other site 416870000909 Cobalt transport protein; Region: CbiQ; cl00463 416870000910 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 416870000911 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 416870000912 Walker A/P-loop; other site 416870000913 ATP binding site [chemical binding]; other site 416870000914 Q-loop/lid; other site 416870000915 ABC transporter signature motif; other site 416870000916 Walker B; other site 416870000917 D-loop; other site 416870000918 H-loop/switch region; other site 416870000919 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 416870000920 ABC-ATPase subunit interface; other site 416870000921 dimer interface [polypeptide binding]; other site 416870000922 putative PBP binding regions; other site 416870000923 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 416870000924 ABC-ATPase subunit interface; other site 416870000925 dimer interface [polypeptide binding]; other site 416870000926 putative PBP binding regions; other site 416870000927 Periplasmic binding protein FeuA. These proteins have predicted to function as initial receptors in ABC transport of metal ions in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: FeuA; cd01138 416870000928 putative ligand binding residues [chemical binding]; other site 416870000929 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 416870000930 Helix-turn-helix domains; Region: HTH; cl00088 416870000931 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 416870000932 dimerization interface [polypeptide binding]; other site 416870000933 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 416870000934 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 416870000935 putative substrate translocation pore; other site 416870000936 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 416870000937 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 416870000938 active site 416870000939 catalytic tetrad [active] 416870000940 Helix-turn-helix domains; Region: HTH; cl00088 416870000941 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_1; cd08352 416870000942 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 416870000943 putative metal binding site [ion binding]; other site 416870000944 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 416870000945 catalytic core [active] 416870000946 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 416870000947 peroxiredoxin; Region: AhpC; TIGR03137 416870000948 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 416870000949 dimer interface [polypeptide binding]; other site 416870000950 decamer (pentamer of dimers) interface [polypeptide binding]; other site 416870000951 catalytic triad [active] 416870000952 peroxidatic and resolving cysteines [active] 416870000953 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 416870000954 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 416870000955 catalytic residue [active] 416870000956 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 416870000957 catalytic residues [active] 416870000958 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 416870000959 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 416870000960 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 416870000961 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 416870000962 recombination protein RecR; Reviewed; Region: recR; PRK00076 416870000963 RecR protein; Region: RecR; pfam02132 416870000964 TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a...; Region: TOPRIM_recR; cd01025 416870000965 putative active site [active] 416870000966 putative metal-binding site [ion binding]; other site 416870000967 tetramer interface [polypeptide binding]; other site 416870000968 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 416870000969 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 416870000970 ATP-grasp domain; Region: ATP-grasp_4; cl03087 416870000971 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 416870000972 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 416870000973 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 416870000974 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 416870000975 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 416870000976 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 416870000977 peptide binding site [polypeptide binding]; other site 416870000978 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 416870000979 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 416870000980 dimer interface [polypeptide binding]; other site 416870000981 conserved gate region; other site 416870000982 putative PBP binding loops; other site 416870000983 ABC-ATPase subunit interface; other site 416870000984 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 416870000985 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 416870000986 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 416870000987 dimer interface [polypeptide binding]; other site 416870000988 conserved gate region; other site 416870000989 putative PBP binding loops; other site 416870000990 ABC-ATPase subunit interface; other site 416870000991 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 416870000992 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 416870000993 Walker A/P-loop; other site 416870000994 ATP binding site [chemical binding]; other site 416870000995 Q-loop/lid; other site 416870000996 ABC transporter signature motif; other site 416870000997 Walker B; other site 416870000998 D-loop; other site 416870000999 H-loop/switch region; other site 416870001000 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 416870001001 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 416870001002 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 416870001003 Walker A/P-loop; other site 416870001004 ATP binding site [chemical binding]; other site 416870001005 Q-loop/lid; other site 416870001006 ABC transporter signature motif; other site 416870001007 Walker B; other site 416870001008 D-loop; other site 416870001009 H-loop/switch region; other site 416870001010 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 416870001011 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 416870001012 G1 box; other site 416870001013 putative GEF interaction site [polypeptide binding]; other site 416870001014 GTP/Mg2+ binding site [chemical binding]; other site 416870001015 Switch I region; other site 416870001016 G2 box; other site 416870001017 G3 box; other site 416870001018 Switch II region; other site 416870001019 G4 box; other site 416870001020 G5 box; other site 416870001021 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 416870001022 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 416870001023 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 416870001024 ATP binding site [chemical binding]; other site 416870001025 Mg++ binding site [ion binding]; other site 416870001026 motif III; other site 416870001027 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 416870001028 nucleotide binding region [chemical binding]; other site 416870001029 ATP-binding site [chemical binding]; other site 416870001030 GTPase Era; Reviewed; Region: era; PRK00089 416870001031 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 416870001032 G1 box; other site 416870001033 GTP/Mg2+ binding site [chemical binding]; other site 416870001034 Switch I region; other site 416870001035 G2 box; other site 416870001036 Switch II region; other site 416870001037 G3 box; other site 416870001038 G4 box; other site 416870001039 G5 box; other site 416870001040 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 416870001041 asparagine synthetase B; Provisional; Region: asnB; PRK09431 416870001042 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 416870001043 dimer interface [polypeptide binding]; other site 416870001044 active site 416870001045 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 416870001046 Ligand Binding Site [chemical binding]; other site 416870001047 Molecular Tunnel; other site 416870001048 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 416870001049 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 416870001050 DNA binding site [nucleotide binding] 416870001051 catalytic residue [active] 416870001052 H2TH interface [polypeptide binding]; other site 416870001053 putative catalytic residues [active] 416870001054 turnover-facilitating residue; other site 416870001055 intercalation triad [nucleotide binding]; other site 416870001056 8OG recognition residue [nucleotide binding]; other site 416870001057 putative reading head residues; other site 416870001058 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 416870001059 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 416870001060 recombinase A; Provisional; Region: recA; PRK09354 416870001061 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 416870001062 hexamer interface [polypeptide binding]; other site 416870001063 Walker A motif; other site 416870001064 ATP binding site [chemical binding]; other site 416870001065 Walker B motif; other site 416870001066 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 416870001067 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 416870001068 Protein of unknown function (DUF964); Region: DUF964; cl01483 416870001069 Uncharacterized protein conserved in bacteria (DUF2129); Region: DUF2129; cl11453 416870001070 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 416870001071 putative active site [active] 416870001072 putative metal binding residues [ion binding]; other site 416870001073 signature motif; other site 416870001074 putative triphosphate binding site [ion binding]; other site 416870001075 Protein of unknown function (DUF817); Region: DUF817; cl01520 416870001076 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 416870001077 synthetase active site [active] 416870001078 NTP binding site [chemical binding]; other site 416870001079 metal binding site [ion binding]; metal-binding site 416870001080 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 416870001081 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 416870001082 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 416870001083 active site 416870001084 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 416870001085 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 416870001086 active site 416870001087 Amino acid transporters [Amino acid transport and metabolism]; Region: LysP; COG0833 416870001088 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 416870001089 ApbE family; Region: ApbE; cl00643 416870001090 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 416870001091 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 416870001092 dimer interface [polypeptide binding]; other site 416870001093 putative anticodon binding site; other site 416870001094 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 416870001095 motif 1; other site 416870001096 active site 416870001097 motif 2; other site 416870001098 motif 3; other site 416870001099 Helix-turn-helix domains; Region: HTH; cl00088 416870001100 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 416870001101 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 416870001102 dimerization interface [polypeptide binding]; other site 416870001103 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 416870001104 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 416870001105 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 416870001106 tetramer (dimer of dimers) interface [polypeptide binding]; other site 416870001107 NAD binding site [chemical binding]; other site 416870001108 dimer interface [polypeptide binding]; other site 416870001109 substrate binding site [chemical binding]; other site 416870001110 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416870001111 Helix-turn-helix domains; Region: HTH; cl00088 416870001112 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 416870001113 dimerization interface [polypeptide binding]; other site 416870001114 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 416870001115 gating phenylalanine in ion channel; other site 416870001116 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 416870001117 THUMP domain; Region: THUMP; cl12076 416870001118 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 416870001119 Ligand Binding Site [chemical binding]; other site 416870001120 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 416870001121 OsmC-like protein; Region: OsmC; cl00767 416870001122 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 416870001123 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 416870001124 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 416870001125 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 416870001126 active site 416870001127 HIGH motif; other site 416870001128 dimer interface [polypeptide binding]; other site 416870001129 KMSKS motif; other site 416870001130 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 416870001131 RNA binding surface [nucleotide binding]; other site 416870001132 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 416870001133 Transglycosylase; Region: Transgly; cl07896 416870001134 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 416870001135 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 416870001136 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 416870001137 oligomer interface [polypeptide binding]; other site 416870001138 active site 416870001139 metal binding site [ion binding]; metal-binding site 416870001140 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 416870001141 catalytic residues [active] 416870001142 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 416870001143 putative tRNA-binding site [nucleotide binding]; other site 416870001144 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 416870001145 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870001146 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 416870001147 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 416870001148 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 416870001149 dimer interface [polypeptide binding]; other site 416870001150 ssDNA binding site [nucleotide binding]; other site 416870001151 tetramer (dimer of dimers) interface [polypeptide binding]; other site 416870001152 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 416870001153 mobile loop; other site 416870001154 oligomerisation interface [polypeptide binding]; other site 416870001155 roof hairpin; other site 416870001156 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 416870001157 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 416870001158 ring oligomerisation interface [polypeptide binding]; other site 416870001159 ATP/Mg binding site [chemical binding]; other site 416870001160 stacking interactions; other site 416870001161 hinge regions; other site 416870001162 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 416870001163 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 416870001164 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 416870001165 putative active site [active] 416870001166 heme pocket [chemical binding]; other site 416870001167 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 416870001168 dimer interface [polypeptide binding]; other site 416870001169 phosphorylation site [posttranslational modification] 416870001170 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 416870001171 ATP binding site [chemical binding]; other site 416870001172 Mg2+ binding site [ion binding]; other site 416870001173 G-X-G motif; other site 416870001174 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 416870001175 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 416870001176 active site 416870001177 phosphorylation site [posttranslational modification] 416870001178 intermolecular recognition site; other site 416870001179 dimerization interface [polypeptide binding]; other site 416870001180 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 416870001181 DNA binding site [nucleotide binding] 416870001182 thymidylate kinase; Validated; Region: tmk; PRK00698 416870001183 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 416870001184 TMP-binding site; other site 416870001185 ATP-binding site [chemical binding]; other site 416870001186 DNA polymerase III subunit delta'; Validated; Region: PRK07276 416870001187 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 416870001188 PSP1 C-terminal conserved region; Region: PSP1; cl00770 416870001189 TSC-22/dip/bun family; Region: TSC22; cl01853 416870001190 Predicted methyltransferases [General function prediction only]; Region: COG0313 416870001191 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 416870001192 ABC-2 type transporter; Region: ABC2_membrane; cl11417 416870001193 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 416870001194 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 416870001195 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 416870001196 Walker A/P-loop; other site 416870001197 ATP binding site [chemical binding]; other site 416870001198 Q-loop/lid; other site 416870001199 ABC transporter signature motif; other site 416870001200 Walker B; other site 416870001201 D-loop; other site 416870001202 H-loop/switch region; other site 416870001203 Helix-turn-helix domains; Region: HTH; cl00088 416870001204 winged helix-turn-helix domain-containing protein/riboflavin kinase; Provisional; Region: PRK14165 416870001205 mevalonate kinase; Region: mevalon_kin; TIGR00549 416870001206 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 416870001207 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 416870001208 Mevalonate pyrophosphate decarboxylase [Lipid metabolism]; Region: MVD1; COG3407 416870001209 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 416870001210 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 416870001211 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 416870001212 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 416870001213 Isopentenyl-diphosphate:dimethylallyl diphosphate isomerase type 2 (IDI-2) FMN-binding domain. Two types of IDIs have been characterized at present. The long known IDI-1 is only dependent on divalent metals for activity, whereas IDI-2 requires a metal; Region: IDI-2_FMN; cd02811 416870001214 homotetramer interface [polypeptide binding]; other site 416870001215 FMN binding site [chemical binding]; other site 416870001216 homodimer contacts [polypeptide binding]; other site 416870001217 putative active site [active] 416870001218 putative substrate binding site [chemical binding]; other site 416870001219 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 416870001220 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 416870001221 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 416870001222 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 416870001223 Carbon starvation protein CstA; Region: CstA; pfam02554 416870001224 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 416870001225 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 416870001226 Predicted transcriptional regulator [Transcription]; Region: COG2378 416870001227 Helix-turn-helix domains; Region: HTH; cl00088 416870001228 WYL domain; Region: WYL; cl14852 416870001229 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 416870001230 DEAD-like helicases superfamily; Region: DEXDc; smart00487 416870001231 ATP binding site [chemical binding]; other site 416870001232 Mg++ binding site [ion binding]; other site 416870001233 motif III; other site 416870001234 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 416870001235 nucleotide binding region [chemical binding]; other site 416870001236 ATP-binding site [chemical binding]; other site 416870001237 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 416870001238 putative active site [active] 416870001239 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 416870001240 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 416870001241 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 416870001242 putative active site [active] 416870001243 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 416870001244 active site 416870001245 P-loop; other site 416870001246 phosphorylation site [posttranslational modification] 416870001247 PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_lac; cd00215 416870001248 active site 416870001249 methionine cluster; other site 416870001250 phosphorylation site [posttranslational modification] 416870001251 metal binding site [ion binding]; metal-binding site 416870001252 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 416870001253 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 416870001254 putative active site [active] 416870001255 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 416870001256 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 416870001257 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 416870001258 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 416870001259 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 416870001260 nucleotide binding pocket [chemical binding]; other site 416870001261 K-X-D-G motif; other site 416870001262 catalytic site [active] 416870001263 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 416870001264 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 416870001265 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 416870001266 Dimer interface [polypeptide binding]; other site 416870001267 BRCT sequence motif; other site 416870001268 putative lipid kinase; Reviewed; Region: PRK13055 416870001269 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 416870001270 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 416870001271 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 416870001272 Walker A/P-loop; other site 416870001273 ATP binding site [chemical binding]; other site 416870001274 Q-loop/lid; other site 416870001275 ABC transporter signature motif; other site 416870001276 Walker B; other site 416870001277 D-loop; other site 416870001278 H-loop/switch region; other site 416870001279 TOBE domain; Region: TOBE_2; cl01440 416870001280 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 416870001281 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 416870001282 dimer interface [polypeptide binding]; other site 416870001283 PYR/PP interface [polypeptide binding]; other site 416870001284 TPP binding site [chemical binding]; other site 416870001285 substrate binding site [chemical binding]; other site 416870001286 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 416870001287 Domain of unknown function; Region: EKR; cl11037 416870001288 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 416870001289 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 416870001290 TPP-binding site [chemical binding]; other site 416870001291 dimer interface [polypeptide binding]; other site 416870001292 Uncharacterized conserved protein [Function unknown]; Region: COG1624 416870001293 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 416870001294 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 416870001295 YbbR-like protein; Region: YbbR; pfam07949 416870001296 YbbR-like protein; Region: YbbR; pfam07949 416870001297 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 416870001298 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 416870001299 active site 416870001300 substrate binding site [chemical binding]; other site 416870001301 metal binding site [ion binding]; metal-binding site 416870001302 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 416870001303 DNA-binding site [nucleotide binding]; DNA binding site 416870001304 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 416870001305 UTRA domain; Region: UTRA; cl01230 416870001306 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cl00162 416870001307 HPr interaction site; other site 416870001308 glycerol kinase (GK) interaction site [polypeptide binding]; other site 416870001309 active site 416870001310 phosphorylation site [posttranslational modification] 416870001311 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 416870001312 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 416870001313 active site turn [active] 416870001314 phosphorylation site [posttranslational modification] 416870001315 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 416870001316 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 416870001317 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 416870001318 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 416870001319 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 416870001320 beta-phosphoglucomutase; Region: bPGM; TIGR01990 416870001321 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 416870001322 motif II; other site 416870001323 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 416870001324 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation', the process of becoming...; Region: Lipase; cl14883 416870001325 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 416870001326 nucleophilic elbow; other site 416870001327 catalytic triad; other site 416870001328 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 416870001329 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 416870001330 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416870001331 Coenzyme A binding pocket [chemical binding]; other site 416870001332 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 416870001333 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 416870001334 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 416870001335 dimerization interface 3.5A [polypeptide binding]; other site 416870001336 active site 416870001337 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 416870001338 dimer interface [polypeptide binding]; other site 416870001339 substrate binding site [chemical binding]; other site 416870001340 ATP binding site [chemical binding]; other site 416870001341 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 416870001342 Protein of unknown function (DUF436); Region: DUF436; cl01860 416870001343 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 416870001344 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 416870001345 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 416870001346 catalytic residue [active] 416870001347 CTP synthetase; Validated; Region: pyrG; PRK05380 416870001348 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 416870001349 Catalytic site [active] 416870001350 active site 416870001351 UTP binding site [chemical binding]; other site 416870001352 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 416870001353 active site 416870001354 putative oxyanion hole; other site 416870001355 catalytic triad [active] 416870001356 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870001357 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 416870001358 NAD(P) binding site [chemical binding]; other site 416870001359 LDH/MDH dimer interface [polypeptide binding]; other site 416870001360 substrate binding site [chemical binding]; other site 416870001361 Protein of unknown function (DUF1003); Region: DUF1003; cl01831 416870001362 Protein of unknown function (DUF2929); Region: DUF2929; pfam11151 416870001363 TIR domain; Region: TIR_2; cl15770 416870001364 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 416870001365 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 416870001366 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 416870001367 Substrate-binding site [chemical binding]; other site 416870001368 Substrate specificity [chemical binding]; other site 416870001369 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 416870001370 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage...; Region: Peptidase_C39_like; cl00296 416870001371 putative active site [active] 416870001372 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 416870001373 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage...; Region: Peptidase_C39_like; cl00296 416870001374 putative active site [active] 416870001375 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK07279 416870001376 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 416870001377 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 416870001378 generic binding surface II; other site 416870001379 generic binding surface I; other site 416870001380 Transcriptional regulators [Transcription]; Region: PurR; COG1609 416870001381 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 416870001382 DNA binding site [nucleotide binding] 416870001383 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 416870001384 dimerization interface [polypeptide binding]; other site 416870001385 ligand binding site [chemical binding]; other site 416870001386 RDD family; Region: RDD; cl00746 416870001387 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 416870001388 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 416870001389 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 416870001390 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 416870001391 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 416870001392 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 416870001393 dimer interface [polypeptide binding]; other site 416870001394 conserved gate region; other site 416870001395 putative PBP binding loops; other site 416870001396 ABC-ATPase subunit interface; other site 416870001397 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 416870001398 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 416870001399 dimer interface [polypeptide binding]; other site 416870001400 conserved gate region; other site 416870001401 putative PBP binding loops; other site 416870001402 ABC-ATPase subunit interface; other site 416870001403 Haemolysin-III related; Region: HlyIII; cl03831 416870001404 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 416870001405 Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_YpmR_like; cd04506 416870001406 active site 416870001407 catalytic triad [active] 416870001408 oxyanion hole [active] 416870001409 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 416870001410 Uncharacterized protein conserved in bacteria (DUF2140); Region: DUF2140; cl11548 416870001411 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 416870001412 IHF dimer interface [polypeptide binding]; other site 416870001413 IHF - DNA interface [nucleotide binding]; other site 416870001414 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 416870001415 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416870001416 Coenzyme A binding pocket [chemical binding]; other site 416870001417 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 416870001418 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 416870001419 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 416870001420 DNA binding site [nucleotide binding] 416870001421 active site 416870001422 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 416870001423 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 416870001424 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416870001425 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416870001426 N-acetyltransferase; Region: Acetyltransf_2; cl00949 416870001427 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 416870001428 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 416870001429 Walker A/P-loop; other site 416870001430 ATP binding site [chemical binding]; other site 416870001431 Q-loop/lid; other site 416870001432 ABC transporter signature motif; other site 416870001433 Walker B; other site 416870001434 D-loop; other site 416870001435 H-loop/switch region; other site 416870001436 ABC-2 type transporter; Region: ABC2_membrane; cl11417 416870001437 LytTr DNA-binding domain; Region: LytTR; cl04498 416870001438 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 416870001439 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 416870001440 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 416870001441 catalytic residue [active] 416870001442 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 416870001443 NlpC/P60 family; Region: NLPC_P60; cl11438 416870001444 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 416870001445 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 416870001446 peptide binding site [polypeptide binding]; other site 416870001447 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 416870001448 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 416870001449 dimer interface [polypeptide binding]; other site 416870001450 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416870001451 catalytic residue [active] 416870001452 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 416870001453 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 416870001454 putative peptidoglycan binding site; other site 416870001455 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 416870001456 putative peptidoglycan binding site; other site 416870001457 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 416870001458 putative peptidoglycan binding site; other site 416870001459 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 416870001460 Transglycosylase; Region: Transgly; cl07896 416870001461 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 416870001462 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 416870001463 Recombination protein U; Region: RecU; cl01314 416870001464 Protein of unknown function (DUF1273); Region: DUF1273; cl01859 416870001465 Arsenate Reductase (ArsC) family, Spx subfamily; Spx is a unique RNA polymerase (RNAP)-binding protein present in bacilli and some mollicutes. It inhibits transcription by binding to the C-terminal domain of the alpha subunit of RNAP, disrupting complex...; Region: ArsC_Spx; cd03032 416870001466 ArsC family; Region: ArsC; pfam03960 416870001467 putative catalytic residues [active] 416870001468 thiol/disulfide switch; other site 416870001469 Uncharacterized protein family (UPF0223); Region: UPF0223; cl11484 416870001470 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 416870001471 active site 416870001472 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 416870001473 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 416870001474 hinge; other site 416870001475 active site 416870001476 trigger factor; Provisional; Region: tig; PRK01490 416870001477 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 416870001478 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 416870001479 DNA primase, catalytic core; Region: dnaG; TIGR01391 416870001480 CHC2 zinc finger; Region: zf-CHC2; cl15369 416870001481 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 416870001482 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 416870001483 active site 416870001484 metal binding site [ion binding]; metal-binding site 416870001485 interdomain interaction site; other site 416870001486 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 416870001487 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 416870001488 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 416870001489 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 416870001490 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 416870001491 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 416870001492 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 416870001493 DNA binding residues [nucleotide binding] 416870001494 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 416870001495 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 416870001496 putative active site [active] 416870001497 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 416870001498 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 416870001499 putative substrate translocation pore; other site 416870001500 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 416870001501 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 416870001502 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 416870001503 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 416870001504 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 416870001505 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 416870001506 Walker A motif; other site 416870001507 ATP binding site [chemical binding]; other site 416870001508 Walker B motif; other site 416870001509 arginine finger; other site 416870001510 Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]; Region: UvrB; COG0556 416870001511 UvrB/uvrC motif; Region: UVR; pfam02151 416870001512 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 416870001513 Walker A motif; other site 416870001514 ATP binding site [chemical binding]; other site 416870001515 Walker B motif; other site 416870001516 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 416870001517 Predicted transcriptional regulator [Transcription]; Region: COG1959 416870001518 Helix-turn-helix domains; Region: HTH; cl00088 416870001519 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870001520 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 416870001521 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 416870001522 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 416870001523 active site 416870001524 catalytic residues [active] 416870001525 metal binding site [ion binding]; metal-binding site 416870001526 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 416870001527 putative active site [active] 416870001528 Ap4A binding site [chemical binding]; other site 416870001529 nudix motif; other site 416870001530 putative metal binding site [ion binding]; other site 416870001531 excinuclease ABC subunit B; Provisional; Region: PRK05298 416870001532 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 416870001533 ATP binding site [chemical binding]; other site 416870001534 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 416870001535 nucleotide binding region [chemical binding]; other site 416870001536 ATP-binding site [chemical binding]; other site 416870001537 Ultra-violet resistance protein B; Region: UvrB; pfam12344 416870001538 UvrB/uvrC motif; Region: UVR; pfam02151 416870001539 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 416870001540 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 416870001541 substrate binding pocket [chemical binding]; other site 416870001542 membrane-bound complex binding site; other site 416870001543 hinge residues; other site 416870001544 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 416870001545 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 416870001546 metal binding site [ion binding]; metal-binding site 416870001547 dimer interface [polypeptide binding]; other site 416870001548 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 416870001549 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 416870001550 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 416870001551 NAD binding site [chemical binding]; other site 416870001552 homotetramer interface [polypeptide binding]; other site 416870001553 homodimer interface [polypeptide binding]; other site 416870001554 substrate binding site [chemical binding]; other site 416870001555 active site 416870001556 OxaA-like protein precursor; Provisional; Region: PRK02463 416870001557 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 416870001558 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 416870001559 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 416870001560 Predicted membrane protein [Function unknown]; Region: COG4684 416870001561 phosphopantothenoylcysteine decarboxylase; Validated; Region: PRK07313 416870001562 Flavoprotein; Region: Flavoprotein; cl08021 416870001563 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 416870001564 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 416870001565 active site 1 [active] 416870001566 dimer interface [polypeptide binding]; other site 416870001567 hexamer interface [polypeptide binding]; other site 416870001568 active site 2 [active] 416870001569 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 416870001570 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 416870001571 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 416870001572 putative transposase OrfB; Reviewed; Region: PHA02517 416870001573 HTH-like domain; Region: HTH_21; pfam13276 416870001574 Integrase core domain; Region: rve; cl01316 416870001575 Integrase core domain; Region: rve_3; cl15866 416870001576 Helix-turn-helix domains; Region: HTH; cl00088 416870001577 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 416870001578 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 416870001579 active site 416870001580 metal binding site [ion binding]; metal-binding site 416870001581 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 416870001582 Transposase, Mutator family; Region: Transposase_mut; pfam00872 416870001583 MULE transposase domain; Region: MULE; pfam10551 416870001584 thymidine kinase; Provisional; Region: PRK04296 416870001585 peptide chain release factor 1; Validated; Region: prfA; PRK00591 416870001586 RF-1 domain; Region: RF-1; cl02875 416870001587 RF-1 domain; Region: RF-1; cl02875 416870001588 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 416870001589 dimer interface [polypeptide binding]; other site 416870001590 FMN binding site [chemical binding]; other site 416870001591 NADPH bind site [chemical binding]; other site 416870001592 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 416870001593 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 416870001594 S-adenosylmethionine binding site [chemical binding]; other site 416870001595 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416870001596 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 416870001597 Coenzyme A binding pocket [chemical binding]; other site 416870001598 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 416870001599 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 416870001600 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 416870001601 dimer interface [polypeptide binding]; other site 416870001602 glycine-pyridoxal phosphate binding site [chemical binding]; other site 416870001603 active site 416870001604 folate binding site [chemical binding]; other site 416870001605 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 416870001606 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 416870001607 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 416870001608 catalytic residue [active] 416870001609 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 416870001610 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870001611 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 416870001612 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 416870001613 phosphoserine phosphatase SerB; Region: serB; TIGR00338 416870001614 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 416870001615 motif II; other site 416870001616 Acylphosphatase; Region: Acylphosphatase; cl00551 416870001617 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 416870001618 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 416870001619 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 416870001620 Cupin domain; Region: Cupin_2; cl09118 416870001621 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 416870001622 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 416870001623 DNA binding residues [nucleotide binding] 416870001624 putative dimer interface [polypeptide binding]; other site 416870001625 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; cl00217 416870001626 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 416870001627 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 416870001628 Helix-turn-helix domains; Region: HTH; cl00088 416870001629 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 416870001630 active site 416870001631 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 416870001632 GtrA-like protein; Region: GtrA; cl00971 416870001633 Protein of unknown function (DUF3272); Region: DUF3272; pfam11676 416870001634 HPr kinase/phosphorylase; Provisional; Region: PRK05428 416870001635 DRTGG domain; Region: DRTGG; cl12147 416870001636 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 416870001637 Hpr binding site; other site 416870001638 active site 416870001639 homohexamer subunit interaction site [polypeptide binding]; other site 416870001640 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 416870001641 Bacterial protein of unknown function (DUF948); Region: DUF948; cl01972 416870001642 YtxH-like protein; Region: YtxH; cl02079 416870001643 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870001644 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 416870001645 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 416870001646 K+ potassium transporter; Region: K_trans; cl15781 416870001647 Protein of unknown function (DUF3042); Region: DUF3042; pfam11240 416870001648 Uncharacterized conserved protein [Function unknown]; Region: COG1284 416870001649 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 416870001650 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 416870001651 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 416870001652 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_4; cd03407 416870001653 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 416870001654 Int/Topo IB signature motif; other site 416870001655 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 416870001656 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 416870001657 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 416870001658 Ligand binding site; other site 416870001659 Putative Catalytic site; other site 416870001660 DXD motif; other site 416870001661 Protein of unknown function (DUF1696); Region: DUF1696; pfam08000 416870001662 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 416870001663 Lactococcus bacteriophage repressor; Region: Lac_bphage_repr; pfam06543 416870001664 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 416870001665 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 416870001666 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870001667 NAD(P) binding site [chemical binding]; other site 416870001668 active site 416870001669 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 416870001670 DHH family; Region: DHH; pfam01368 416870001671 DHHA1 domain; Region: DHHA1; pfam02272 416870001672 Single-strand DNA-specific exonuclease, C terminal domain; Region: ssDNA-exonuc_C; cl11538 416870001673 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 416870001674 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 416870001675 active site 416870001676 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; cl01319 416870001677 YceG-like family; Region: YceG; pfam02618 416870001678 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 416870001679 dimerization interface [polypeptide binding]; other site 416870001680 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 416870001681 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 416870001682 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 416870001683 Helix-turn-helix domains; Region: HTH; cl00088 416870001684 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416870001685 Helix-turn-helix domains; Region: HTH; cl00088 416870001686 Helix-turn-helix domains; Region: HTH; cl00088 416870001687 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 416870001688 HTH-like domain; Region: HTH_21; pfam13276 416870001689 Integrase core domain; Region: rve; cl01316 416870001690 Integrase core domain; Region: rve_3; cl15866 416870001691 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; cl01850 416870001692 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 416870001693 Clp amino terminal domain; Region: Clp_N; pfam02861 416870001694 Clp amino terminal domain; Region: Clp_N; pfam02861 416870001695 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 416870001696 Walker A motif; other site 416870001697 ATP binding site [chemical binding]; other site 416870001698 Walker B motif; other site 416870001699 arginine finger; other site 416870001700 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 416870001701 Walker A motif; other site 416870001702 ATP binding site [chemical binding]; other site 416870001703 Walker B motif; other site 416870001704 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 416870001705 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cd00552 416870001706 30S subunit binding site; other site 416870001707 enolase; Provisional; Region: eno; PRK00077 416870001708 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 416870001709 dimer interface [polypeptide binding]; other site 416870001710 metal binding site [ion binding]; metal-binding site 416870001711 substrate binding pocket [chemical binding]; other site 416870001712 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 416870001713 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 416870001714 DNA binding site [nucleotide binding] 416870001715 Int/Topo IB signature motif; other site 416870001716 active site 416870001717 putative transposase OrfB; Reviewed; Region: PHA02517 416870001718 HTH-like domain; Region: HTH_21; pfam13276 416870001719 Integrase core domain; Region: rve; cl01316 416870001720 Integrase core domain; Region: rve_3; cl15866 416870001721 Helix-turn-helix domains; Region: HTH; cl00088 416870001722 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 416870001723 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 416870001724 Walker A/P-loop; other site 416870001725 ATP binding site [chemical binding]; other site 416870001726 Q-loop/lid; other site 416870001727 ABC transporter signature motif; other site 416870001728 Walker B; other site 416870001729 D-loop; other site 416870001730 H-loop/switch region; other site 416870001731 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 416870001732 FtsX-like permease family; Region: FtsX; cl15850 416870001733 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 416870001734 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 416870001735 AMP-binding enzyme; Region: AMP-binding; cl15778 416870001736 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 416870001737 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 416870001738 Pyruvate formate lyase 1; Region: PFL1; cd01678 416870001739 coenzyme A binding site [chemical binding]; other site 416870001740 active site 416870001741 catalytic residues [active] 416870001742 glycine loop; other site 416870001743 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 416870001744 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 416870001745 CoA-binding site [chemical binding]; other site 416870001746 ATP-binding [chemical binding]; other site 416870001747 drug efflux system protein MdtG; Provisional; Region: PRK09874 416870001748 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 416870001749 putative substrate translocation pore; other site 416870001750 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 416870001751 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 416870001752 pyruvate carboxylase; Reviewed; Region: PRK12999 416870001753 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 416870001754 ATP-grasp domain; Region: ATP-grasp_4; cl03087 416870001755 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 416870001756 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 416870001757 active site 416870001758 catalytic residues [active] 416870001759 metal binding site [ion binding]; metal-binding site 416870001760 homodimer binding site [polypeptide binding]; other site 416870001761 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 416870001762 carboxyltransferase (CT) interaction site; other site 416870001763 biotinylation site [posttranslational modification]; other site 416870001764 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_1_2; cd06113 416870001765 dimer interface [polypeptide binding]; other site 416870001766 Citrate synthase; Region: Citrate_synt; pfam00285 416870001767 active site 416870001768 citrylCoA binding site [chemical binding]; other site 416870001769 oxalacetate/citrate binding site [chemical binding]; other site 416870001770 coenzyme A binding site [chemical binding]; other site 416870001771 catalytic triad [active] 416870001772 aconitate hydratase; Validated; Region: PRK09277 416870001773 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 416870001774 substrate binding site [chemical binding]; other site 416870001775 ligand binding site [chemical binding]; other site 416870001776 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 416870001777 substrate binding site [chemical binding]; other site 416870001778 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 416870001779 isocitrate dehydrogenase; Validated; Region: PRK07362 416870001780 Clp protease; Region: CLP_protease; pfam00574 416870001781 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 416870001782 oligomer interface [polypeptide binding]; other site 416870001783 active site residues [active] 416870001784 Arsenate Reductase (ArsC) family, Spx subfamily; Spx is a unique RNA polymerase (RNAP)-binding protein present in bacilli and some mollicutes. It inhibits transcription by binding to the C-terminal domain of the alpha subunit of RNAP, disrupting complex...; Region: ArsC_Spx; cd03032 416870001785 ArsC family; Region: ArsC; pfam03960 416870001786 putative catalytic residues [active] 416870001787 thiol/disulfide switch; other site 416870001788 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 416870001789 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 416870001790 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 416870001791 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 416870001792 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 416870001793 motif II; other site 416870001794 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 416870001795 OpgC protein; Region: OpgC_C; cl00792 416870001796 OpgC protein; Region: OpgC_C; cl00792 416870001797 poly-beta-1,6 N-acetyl-D-glucosamine synthase; Region: PgaC_IcaA; TIGR03937 416870001798 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 416870001799 DXD motif; other site 416870001800 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 416870001801 putative transposase OrfB; Reviewed; Region: PHA02517 416870001802 HTH-like domain; Region: HTH_21; pfam13276 416870001803 Integrase core domain; Region: rve; cl01316 416870001804 Integrase core domain; Region: rve_3; cl15866 416870001805 Helix-turn-helix domains; Region: HTH; cl00088 416870001806 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 416870001807 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 416870001808 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 416870001809 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 416870001810 HTH-like domain; Region: HTH_21; pfam13276 416870001811 Integrase core domain; Region: rve; cl01316 416870001812 Integrase core domain; Region: rve_3; cl15866 416870001813 Helix-turn-helix domains; Region: HTH; cl00088 416870001814 Integrase core domain; Region: rve; cl01316 416870001815 Integrase core domain; Region: rve_3; cl15866 416870001816 Helix-turn-helix domains; Region: HTH; cl00088 416870001817 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 416870001818 Transposase domain (DUF772); Region: DUF772; cl15789 416870001819 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 416870001820 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 416870001821 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 416870001822 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 416870001823 HsdM N-terminal domain; Region: HsdM_N; pfam12161 416870001824 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 416870001825 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870001826 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 416870001827 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 416870001828 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 416870001829 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 416870001830 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 416870001831 putative substrate binding pocket [chemical binding]; other site 416870001832 AC domain interface; other site 416870001833 catalytic triad [active] 416870001834 AB domain interface; other site 416870001835 interchain disulfide; other site 416870001836 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 416870001837 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 416870001838 metal binding site [ion binding]; metal-binding site 416870001839 dimer interface [polypeptide binding]; other site 416870001840 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 416870001841 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 416870001842 putative substrate translocation pore; other site 416870001843 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416870001844 Coenzyme A binding pocket [chemical binding]; other site 416870001845 Lactococcin-like family; Region: Lactococcin; pfam04369 416870001846 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK12323 416870001847 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 416870001848 Integrase core domain; Region: rve; cl01316 416870001849 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416870001850 Coenzyme A binding pocket [chemical binding]; other site 416870001851 Helix-turn-helix domains; Region: HTH; cl00088 416870001852 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 416870001853 non-specific DNA binding site [nucleotide binding]; other site 416870001854 salt bridge; other site 416870001855 sequence-specific DNA binding site [nucleotide binding]; other site 416870001856 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 416870001857 Integrase core domain; Region: rve; cl01316 416870001858 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 416870001859 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 416870001860 Walker A motif; other site 416870001861 ATP binding site [chemical binding]; other site 416870001862 Walker B motif; other site 416870001863 arginine finger; other site 416870001864 putative transposase OrfB; Reviewed; Region: PHA02517 416870001865 HTH-like domain; Region: HTH_21; pfam13276 416870001866 Integrase core domain; Region: rve; cl01316 416870001867 Integrase core domain; Region: rve_3; cl15866 416870001868 Lactococcin-like family; Region: Lactococcin; pfam04369 416870001869 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 416870001870 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 416870001871 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 416870001872 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 416870001873 metal-binding site [ion binding] 416870001874 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 416870001875 dinuclear metal binding motif [ion binding]; other site 416870001876 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 416870001877 CRP/FNR family transcriptional regulator; Provisional; Region: PRK13918 416870001878 ligand binding site [chemical binding]; other site 416870001879 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 416870001880 putative switch regulator; other site 416870001881 non-specific DNA interactions [nucleotide binding]; other site 416870001882 DNA binding site [nucleotide binding] 416870001883 sequence specific DNA binding site [nucleotide binding]; other site 416870001884 putative cAMP binding site [chemical binding]; other site 416870001885 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 416870001886 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 416870001887 Walker A/P-loop; other site 416870001888 ATP binding site [chemical binding]; other site 416870001889 Q-loop/lid; other site 416870001890 ABC transporter signature motif; other site 416870001891 Walker B; other site 416870001892 D-loop; other site 416870001893 H-loop/switch region; other site 416870001894 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 416870001895 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 416870001896 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 416870001897 Walker A/P-loop; other site 416870001898 ATP binding site [chemical binding]; other site 416870001899 Q-loop/lid; other site 416870001900 ABC transporter signature motif; other site 416870001901 Walker B; other site 416870001902 D-loop; other site 416870001903 H-loop/switch region; other site 416870001904 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 416870001905 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 416870001906 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 416870001907 dimer interface [polypeptide binding]; other site 416870001908 conserved gate region; other site 416870001909 putative PBP binding loops; other site 416870001910 ABC-ATPase subunit interface; other site 416870001911 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 416870001912 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 416870001913 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 416870001914 dimer interface [polypeptide binding]; other site 416870001915 conserved gate region; other site 416870001916 putative PBP binding loops; other site 416870001917 ABC-ATPase subunit interface; other site 416870001918 The substrate binding component of an ABC-type lactococcal OppA-like transport system contains; Region: PBP2_Lactococcal_OppA_like; cd08510 416870001919 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 416870001920 peptide binding site [polypeptide binding]; other site 416870001921 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 416870001922 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 416870001923 active site 416870001924 Zn binding site [ion binding]; other site 416870001925 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 416870001926 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 416870001927 Lactococcin-like family; Region: Lactococcin; pfam04369 416870001928 Enterocin A Immunity; Region: EntA_Immun; pfam08951 416870001929 Enterocin A Immunity; Region: EntA_Immun; pfam08951 416870001930 Protein of unknown function (DUF2089); Region: DUF2089; pfam09862 416870001931 Helix-turn-helix domains; Region: HTH; cl00088 416870001932 hypothetical protein; Validated; Region: PRK07668 416870001933 multiple promoter invertase; Provisional; Region: mpi; PRK13413 416870001934 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 416870001935 catalytic residues [active] 416870001936 catalytic nucleophile [active] 416870001937 Presynaptic Site I dimer interface [polypeptide binding]; other site 416870001938 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 416870001939 Synaptic Flat tetramer interface [polypeptide binding]; other site 416870001940 Synaptic Site I dimer interface [polypeptide binding]; other site 416870001941 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 416870001942 DNA-binding interface [nucleotide binding]; DNA binding site 416870001943 putative transposase OrfB; Reviewed; Region: PHA02517 416870001944 HTH-like domain; Region: HTH_21; pfam13276 416870001945 Integrase core domain; Region: rve; cl01316 416870001946 Integrase core domain; Region: rve_3; cl15866 416870001947 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 416870001948 Integrase core domain; Region: rve; cl01316 416870001949 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870001950 ATP binding site [chemical binding]; other site 416870001951 substrate interface [chemical binding]; other site 416870001952 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 416870001953 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 416870001954 Helix-turn-helix domains; Region: HTH; cl00088 416870001955 putative transposase OrfB; Reviewed; Region: PHA02517 416870001956 HTH-like domain; Region: HTH_21; pfam13276 416870001957 Integrase core domain; Region: rve; cl01316 416870001958 Integrase core domain; Region: rve_3; cl15866 416870001959 seryl-tRNA synthetase; Provisional; Region: PRK05431 416870001960 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 416870001961 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 416870001962 dimer interface [polypeptide binding]; other site 416870001963 active site 416870001964 motif 1; other site 416870001965 motif 2; other site 416870001966 motif 3; other site 416870001967 Domain of unknown function (DUF956); Region: DUF956; cl01917 416870001968 Uncharacterized conserved protein [Function unknown]; Region: COG1284 416870001969 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 416870001970 Domain of unknown function (DUF956); Region: DUF956; cl01917 416870001971 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 416870001972 PTS system sorbose-specific iic component; Region: EII-Sor; cl01506 416870001973 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 416870001974 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 416870001975 active pocket/dimerization site; other site 416870001976 active site 416870001977 phosphorylation site [posttranslational modification] 416870001978 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 416870001979 active site 416870001980 phosphorylation site [posttranslational modification] 416870001981 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 416870001982 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 416870001983 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 416870001984 putative peptidoglycan binding site; other site 416870001985 cytidylate kinase; Provisional; Region: cmk; PRK00023 416870001986 Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor; Region: CMPK; cd02020 416870001987 CMP-binding site; other site 416870001988 The sites determining sugar specificity; other site 416870001989 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 416870001990 Isochorismatase family; Region: Isochorismatase; pfam00857 416870001991 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 416870001992 catalytic triad [active] 416870001993 dimer interface [polypeptide binding]; other site 416870001994 conserved cis-peptide bond; other site 416870001995 CAAX protease self-immunity; Region: Abi; cl00558 416870001996 ABC-type maltose transport systems, permease component [Carbohydrate transport and metabolism]; Region: MalG; COG3833 416870001997 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 416870001998 dimer interface [polypeptide binding]; other site 416870001999 conserved gate region; other site 416870002000 putative PBP binding loops; other site 416870002001 ABC-ATPase subunit interface; other site 416870002002 ABC-type maltose transport systems, permease component [Carbohydrate transport and metabolism]; Region: MalG; COG3833 416870002003 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 416870002004 dimer interface [polypeptide binding]; other site 416870002005 conserved gate region; other site 416870002006 putative PBP binding loops; other site 416870002007 ABC-ATPase subunit interface; other site 416870002008 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 416870002009 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 416870002010 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 416870002011 homodimer interface [polypeptide binding]; other site 416870002012 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 416870002013 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 416870002014 active site 416870002015 homodimer interface [polypeptide binding]; other site 416870002016 catalytic site [active] 416870002017 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 416870002018 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 416870002019 Ca binding site [ion binding]; other site 416870002020 active site 416870002021 catalytic site [active] 416870002022 maltose O-acetyltransferase; Provisional; Region: PRK10092 416870002023 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 416870002024 active site 416870002025 substrate binding site [chemical binding]; other site 416870002026 trimer interface [polypeptide binding]; other site 416870002027 CoA binding site [chemical binding]; other site 416870002028 Alpha amylase catalytic domain found in bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac2_AmyA; cd11316 416870002029 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 416870002030 Ca binding site [ion binding]; other site 416870002031 active site 416870002032 catalytic site [active] 416870002033 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 416870002034 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 416870002035 Ca binding site [ion binding]; other site 416870002036 active site 416870002037 catalytic site [active] 416870002038 maltose phosphorylase; Provisional; Region: PRK13807 416870002039 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 416870002040 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 416870002041 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 416870002042 Transcriptional regulators [Transcription]; Region: PurR; COG1609 416870002043 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 416870002044 DNA binding site [nucleotide binding] 416870002045 domain linker motif; other site 416870002046 Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors; Region: PBP1_ycjW_transcription_regulator_like; cd06294 416870002047 putative dimerization interface [polypeptide binding]; other site 416870002048 putative ligand binding site [chemical binding]; other site 416870002049 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 416870002050 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 416870002051 active site 416870002052 phosphorylation site [posttranslational modification] 416870002053 intermolecular recognition site; other site 416870002054 dimerization interface [polypeptide binding]; other site 416870002055 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 416870002056 DNA binding site [nucleotide binding] 416870002057 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 416870002058 dimer interface [polypeptide binding]; other site 416870002059 phosphorylation site [posttranslational modification] 416870002060 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 416870002061 ATP binding site [chemical binding]; other site 416870002062 Mg2+ binding site [ion binding]; other site 416870002063 G-X-G motif; other site 416870002064 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK12315 416870002065 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 416870002066 TPP-binding site; other site 416870002067 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 416870002068 PYR/PP interface [polypeptide binding]; other site 416870002069 dimer interface [polypeptide binding]; other site 416870002070 TPP binding site [chemical binding]; other site 416870002071 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 416870002072 Haemolytic domain; Region: Haemolytic; cl00506 416870002073 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 416870002074 Predicted membrane protein [Function unknown]; Region: COG1511 416870002075 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 416870002076 ABC-2 type transporter; Region: ABC2_membrane; cl11417 416870002077 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 416870002078 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 416870002079 S-adenosylmethionine binding site [chemical binding]; other site 416870002080 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870002081 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 416870002082 non-specific DNA binding site [nucleotide binding]; other site 416870002083 salt bridge; other site 416870002084 sequence-specific DNA binding site [nucleotide binding]; other site 416870002085 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 416870002086 Enterocin A Immunity; Region: EntA_Immun; pfam08951 416870002087 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-linked...; Region: EriC; cd01031 416870002088 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 416870002089 Cl- selectivity filter; other site 416870002090 Cl- binding residues [ion binding]; other site 416870002091 pore gating glutamate residue; other site 416870002092 dimer interface [polypeptide binding]; other site 416870002093 H+/Cl- coupling transport residue; other site 416870002094 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 416870002095 UbiA prenyltransferase family; Region: UbiA; cl00337 416870002096 Cpl-7 lysozyme C-terminal domain; Region: Cpl-7; cl07020 416870002097 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 416870002098 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 416870002099 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870002100 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 416870002101 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 416870002102 ATP-binding site [chemical binding]; other site 416870002103 Sugar specificity; other site 416870002104 Pyrimidine base specificity; other site 416870002105 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 416870002106 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 416870002107 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 416870002108 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 416870002109 active site 416870002110 motif I; other site 416870002111 motif II; other site 416870002112 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 416870002113 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 416870002114 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 416870002115 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 416870002116 cell division protein GpsB; Provisional; Region: PRK14127 416870002117 DivIVA domain; Region: DivI1A_domain; TIGR03544 416870002118 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 416870002119 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870002120 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 416870002121 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 416870002122 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 416870002123 active site 416870002124 catabolite control protein A; Region: ccpA; TIGR01481 416870002125 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 416870002126 DNA binding site [nucleotide binding] 416870002127 domain linker motif; other site 416870002128 Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation; Region: PBP1_CcpA_like; cd06298 416870002129 dimerization interface [polypeptide binding]; other site 416870002130 effector binding site; other site 416870002131 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 416870002132 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870002133 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 416870002134 Colicin V production protein; Region: Colicin_V; cl00567 416870002135 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 416870002136 MutS2 homologs in bacteria and eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also...; Region: ABC_MutS2; cd03280 416870002137 Walker A/P-loop; other site 416870002138 ATP binding site [chemical binding]; other site 416870002139 Q-loop/lid; other site 416870002140 ABC transporter signature motif; other site 416870002141 Walker B; other site 416870002142 D-loop; other site 416870002143 H-loop/switch region; other site 416870002144 Smr domain; Region: Smr; cl02619 416870002145 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 416870002146 catalytic residues [active] 416870002147 Protein of unknown function (DUF2969); Region: DUF2969; pfam11184 416870002148 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 416870002149 3-dehydroquinate dehydratase, type I; Region: aroD; TIGR01093 416870002150 active site 416870002151 catalytic residue [active] 416870002152 dimer interface [polypeptide binding]; other site 416870002153 adenylosuccinate lyase; Provisional; Region: PRK07492 416870002154 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 416870002155 tetramer interface [polypeptide binding]; other site 416870002156 active site 416870002157 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 416870002158 Transcriptional regulators [Transcription]; Region: PurR; COG1609 416870002159 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 416870002160 DNA binding site [nucleotide binding] 416870002161 domain linker motif; other site 416870002162 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 416870002163 dimerization interface [polypeptide binding]; other site 416870002164 ligand binding site [chemical binding]; other site 416870002165 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 416870002166 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 416870002167 substrate binding site [chemical binding]; other site 416870002168 dimer interface [polypeptide binding]; other site 416870002169 ATP binding site [chemical binding]; other site 416870002170 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 416870002171 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 416870002172 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 416870002173 Walker A/P-loop; other site 416870002174 ATP binding site [chemical binding]; other site 416870002175 Q-loop/lid; other site 416870002176 ABC transporter signature motif; other site 416870002177 Walker B; other site 416870002178 D-loop; other site 416870002179 H-loop/switch region; other site 416870002180 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 416870002181 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 416870002182 TM-ABC transporter signature motif; other site 416870002183 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 416870002184 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 416870002185 ligand binding site [chemical binding]; other site 416870002186 dimerization interface [polypeptide binding]; other site 416870002187 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 416870002188 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 416870002189 DNA binding site [nucleotide binding] 416870002190 Int/Topo IB signature motif; other site 416870002191 active site 416870002192 tRNA_anti-like; Region: tRNA_anti-like; pfam12869 416870002193 Domain of unknown function (DUF955); Region: DUF955; cl01076 416870002194 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 416870002195 non-specific DNA binding site [nucleotide binding]; other site 416870002196 salt bridge; other site 416870002197 sequence-specific DNA binding site [nucleotide binding]; other site 416870002198 Protein of unknown function (Hypoth_ymh); Region: Hypoth_Ymh; cl09741 416870002199 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 416870002200 AntA/AntB antirepressor; Region: AntA; cl01430 416870002201 ORF6C domain; Region: ORF6C; pfam10552 416870002202 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 416870002203 Lactococcus bacteriophage putative transcription regulator; Region: Phage_Treg; cl11500 416870002204 Bacteriophage Mu Gam like protein; Region: Phage_Mu_Gam; cl01825 416870002205 phage nucleotide-binding protein; Region: phage_P_loop; TIGR01618 416870002206 AAA domain; Region: AAA_24; pfam13479 416870002207 Putative replisome organiser protein C-terminus; Region: Rep_Org_C; pfam06926 416870002208 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 416870002209 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 416870002210 Endodeoxyribonuclease RusA; Region: RusA; cl01885 416870002211 Protein of unknown function (DUF1031); Region: DUF1031; pfam06275 416870002212 Protein of unknown function (DUF1125); Region: DUF1125; pfam06563 416870002213 Protein of unknown function (DUF1642); Region: DUF1642; pfam07852 416870002214 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 416870002215 trimer interface [polypeptide binding]; other site 416870002216 active site 416870002217 Prophage protein (DUF1660); Region: DUF1660; pfam07874 416870002218 Protein of unknown function (DUF722); Region: DUF722; pfam05263 416870002219 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 416870002220 Integrase core domain; Region: rve; cl01316 416870002221 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 416870002222 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 416870002223 Walker A motif; other site 416870002224 ATP binding site [chemical binding]; other site 416870002225 Walker B motif; other site 416870002226 arginine finger; other site 416870002227 Terminase small subunit; Region: Terminase_2; cl01513 416870002228 Phage terminase large subunit; Region: Terminase_3; cl12054 416870002229 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 416870002230 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 416870002231 Protein of unknown function (DUF464); Region: DUF464; cl01080 416870002232 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 416870002233 Protein of unknown function (DUF3892); Region: DUF3892; pfam13031 416870002234 Domain of unknown function (DUF4355); Region: DUF4355; pfam14265 416870002235 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 416870002236 Head-Tail Connector Protein gp15 of Bacteriophage SPP1 and similar proteins; Region: gp15; cd08055 416870002237 Phage tail protein; Region: Phage_tail_3; pfam08813 416870002238 Phage-related protein [Function unknown]; Region: COG5412 416870002239 Phage-related tail protein [Function unknown]; Region: COG5283 416870002240 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 416870002241 gp58-like protein; Region: Gp58; pfam07902 416870002242 Cpl-1 lysin (also known as Cpl-9 lysozyme / muramidase) is a bacterial cell wall endolysin encoded by the pneumococcal bacteriophage Cp-1, which cleaves the glycosidic N-acetylmuramoyl-(beta1,4)-N-acetylglucosamine bonds of the pneumococcal glycan chain; Region: GH25_Cpl1-like; cd06415 416870002243 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 416870002244 active site 416870002245 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 416870002246 putative peptidoglycan binding site; other site 416870002247 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 416870002248 putative peptidoglycan binding site; other site 416870002249 Abi-like protein; Region: Abi_2; cl01988 416870002250 Enterocin A Immunity; Region: EntA_Immun; pfam08951 416870002251 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 416870002252 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 416870002253 putative substrate translocation pore; other site 416870002254 Transcriptional regulators [Transcription]; Region: GntR; COG1802 416870002255 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 416870002256 DNA-binding site [nucleotide binding]; DNA binding site 416870002257 FCD domain; Region: FCD; cl11656 416870002258 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 416870002259 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 416870002260 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 416870002261 mannonate dehydratase; Provisional; Region: PRK03906 416870002262 mannonate dehydratase; Region: uxuA; TIGR00695 416870002263 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 416870002264 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 416870002265 putative substrate translocation pore; other site 416870002266 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 416870002267 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 416870002268 active site 416870002269 catalytic residues [active] 416870002270 Glucuronate isomerase; Region: UxaC; cl00829 416870002271 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 416870002272 active site 416870002273 intersubunit interface [polypeptide binding]; other site 416870002274 catalytic residue [active] 416870002275 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 416870002276 PRD domain; Region: PRD; cl15445 416870002277 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 416870002278 P-loop; other site 416870002279 active site 416870002280 phosphorylation site [posttranslational modification] 416870002281 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 416870002282 active site 416870002283 phosphorylation site [posttranslational modification] 416870002284 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 416870002285 P-loop; other site 416870002286 active site 416870002287 phosphorylation site [posttranslational modification] 416870002288 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 416870002289 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 416870002290 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 416870002291 TPP-binding site [chemical binding]; other site 416870002292 dimer interface [polypeptide binding]; other site 416870002293 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 416870002294 PYR/PP interface [polypeptide binding]; other site 416870002295 dimer interface [polypeptide binding]; other site 416870002296 TPP binding site [chemical binding]; other site 416870002297 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 416870002298 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 416870002299 amphipathic channel; other site 416870002300 Asn-Pro-Ala signature motifs; other site 416870002301 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 416870002302 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870002303 NAD(P) binding site [chemical binding]; other site 416870002304 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 416870002305 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_18; cd04677 416870002306 nudix motif; other site 416870002307 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_18; cd04677 416870002308 nudix motif; other site 416870002309 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 416870002310 dihydrodipicolinate synthase; Region: dapA; TIGR00674 416870002311 dimer interface [polypeptide binding]; other site 416870002312 active site 416870002313 catalytic residue [active] 416870002314 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 416870002315 MgtC family; Region: MgtC; pfam02308 416870002316 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 416870002317 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 416870002318 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 416870002319 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 416870002320 signal recognition particle protein; Provisional; Region: PRK10867 416870002321 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 416870002322 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 416870002323 P loop; other site 416870002324 GTP binding site [chemical binding]; other site 416870002325 Signal peptide binding domain; Region: SRP_SPB; pfam02978 416870002326 spermidine N1-acetyltransferase; Provisional; Region: PRK15130 416870002327 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 416870002328 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 416870002329 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870002330 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870002331 AzlC protein; Region: AzlC; cl00570 416870002332 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 416870002333 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 416870002334 Uncharacterized conserved protein [Function unknown]; Region: COG2461 416870002335 Family of unknown function (DUF438); Region: DUF438; pfam04282 416870002336 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 416870002337 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 416870002338 nucleotide binding site [chemical binding]; other site 416870002339 homotetrameric interface [polypeptide binding]; other site 416870002340 putative phosphate binding site [ion binding]; other site 416870002341 putative allosteric binding site; other site 416870002342 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 416870002343 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 416870002344 putative catalytic cysteine [active] 416870002345 Cation efflux family; Region: Cation_efflux; cl00316 416870002346 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 416870002347 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 416870002348 dimerization interface [polypeptide binding]; other site 416870002349 putative DNA binding site [nucleotide binding]; other site 416870002350 putative Zn2+ binding site [ion binding]; other site 416870002351 Peptidase M50B-like; Region: Peptidase_M50B; pfam13398 416870002352 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 416870002353 active site 416870002354 uracil transporter; Provisional; Region: PRK10720 416870002355 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 416870002356 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 416870002357 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 416870002358 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870002359 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 416870002360 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 416870002361 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 416870002362 catalytic site [active] 416870002363 subunit interface [polypeptide binding]; other site 416870002364 Host cell surface-exposed lipoprotein; Region: Lipoprotein_Ltp; pfam07553 416870002365 Host cell surface-exposed lipoprotein; Region: Lipoprotein_Ltp; pfam07553 416870002366 Helix-turn-helix domains; Region: HTH; cl00088 416870002367 putative transposase OrfB; Reviewed; Region: PHA02517 416870002368 HTH-like domain; Region: HTH_21; pfam13276 416870002369 Integrase core domain; Region: rve; cl01316 416870002370 Integrase core domain; Region: rve_3; cl15866 416870002371 Low molecular weight phosphatase family; Region: LMWPc; cd00115 416870002372 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 416870002373 active site 416870002374 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 416870002375 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 416870002376 putative active site [active] 416870002377 putative metal binding site [ion binding]; other site 416870002378 NlpC/P60 family; Region: NLPC_P60; cl11438 416870002379 Pyrimidine dimer DNA glycosylase; Region: Pyr_excise; cl12126 416870002380 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 416870002381 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 416870002382 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 416870002383 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 416870002384 active site 416870002385 phosphorylation site [posttranslational modification] 416870002386 intermolecular recognition site; other site 416870002387 dimerization interface [polypeptide binding]; other site 416870002388 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 416870002389 DNA binding site [nucleotide binding] 416870002390 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 416870002391 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 416870002392 dimer interface [polypeptide binding]; other site 416870002393 phosphorylation site [posttranslational modification] 416870002394 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 416870002395 ATP binding site [chemical binding]; other site 416870002396 Mg2+ binding site [ion binding]; other site 416870002397 G-X-G motif; other site 416870002398 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 416870002399 Nitrogen regulatory protein P-II; Region: P-II; cl00412 416870002400 Nitrogen regulatory protein P-II; Region: P-II; smart00938 416870002401 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 416870002402 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870002403 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 416870002404 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 416870002405 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 416870002406 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 416870002407 homodimer interface [polypeptide binding]; other site 416870002408 active site 416870002409 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 416870002410 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 416870002411 Cell division protein FtsQ; Region: FtsQ; pfam03799 416870002412 GTPase CgtA; Reviewed; Region: obgE; PRK12297 416870002413 GTP1/OBG; Region: GTP1_OBG; pfam01018 416870002414 Obg GTPase; Region: Obg; cd01898 416870002415 G1 box; other site 416870002416 GTP/Mg2+ binding site [chemical binding]; other site 416870002417 Switch I region; other site 416870002418 G2 box; other site 416870002419 G3 box; other site 416870002420 Switch II region; other site 416870002421 G4 box; other site 416870002422 G5 box; other site 416870002423 Domain of unknown function (DUF1967); Region: DUF1967; cl07779 416870002424 WxL domain surface cell wall-binding; Region: WxL; pfam13731 416870002425 WxL domain surface cell wall-binding; Region: WxL; pfam13731 416870002426 WxL domain surface cell wall-binding; Region: WxL; pfam13731 416870002427 Bacterial protein of unknown function (DUF916); Region: DUF916; pfam06030 416870002428 Protein of unknown function C-terminal (DUF3324); Region: DUF3324; pfam11797 416870002429 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 416870002430 non-specific DNA binding site [nucleotide binding]; other site 416870002431 salt bridge; other site 416870002432 sequence-specific DNA binding site [nucleotide binding]; other site 416870002433 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 416870002434 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 416870002435 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 416870002436 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 416870002437 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 416870002438 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 416870002439 active site 416870002440 trimer interface [polypeptide binding]; other site 416870002441 allosteric site; other site 416870002442 active site lid [active] 416870002443 hexamer (dimer of trimers) interface [polypeptide binding]; other site 416870002444 'initiating' condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are characterized by the...; Region: init_cond_enzymes; cd00827 416870002445 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 416870002446 dimer interface [polypeptide binding]; other site 416870002447 active site 416870002448 putative acyltransferase; Provisional; Region: PRK05790 416870002449 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 416870002450 dimer interface [polypeptide binding]; other site 416870002451 active site 416870002452 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 416870002453 homodimer interface [polypeptide binding]; other site 416870002454 NAD binding site [chemical binding]; other site 416870002455 catalytic residues [active] 416870002456 substrate binding pocket [chemical binding]; other site 416870002457 flexible flap; other site 416870002458 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 416870002459 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 416870002460 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 416870002461 Ferrochelatase; Region: Ferrochelatase; pfam00762 416870002462 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 416870002463 C-terminal domain interface [polypeptide binding]; other site 416870002464 active site 416870002465 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 416870002466 active site 416870002467 N-terminal domain interface [polypeptide binding]; other site 416870002468 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 416870002469 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 416870002470 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 416870002471 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 416870002472 RimM N-terminal domain; Region: RimM; pfam01782 416870002473 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 416870002474 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 416870002475 Protein of unknown function (DUF1149); Region: DUF1149; cl11551 416870002476 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 416870002477 dihydrodipicolinate reductase; Provisional; Region: PRK00048 416870002478 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870002479 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 416870002480 Predicted acetyltransferase [General function prediction only]; Region: COG3981 416870002481 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 416870002482 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 416870002483 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 416870002484 active site 416870002485 NTP binding site [chemical binding]; other site 416870002486 metal binding triad [ion binding]; metal-binding site 416870002487 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 416870002488 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 416870002489 Dipeptidase [Amino acid transport and metabolism]; Region: PepD; COG4690 416870002490 Peptidase family C69; Region: Peptidase_C69; pfam03577 416870002491 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 416870002492 Glycerol dehydrogenases-like; Region: GlyDH-like1; cd08172 416870002493 putative active site [active] 416870002494 metal binding site [ion binding]; metal-binding site 416870002495 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416870002496 Helix-turn-helix domains; Region: HTH; cl00088 416870002497 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 416870002498 dimerization interface [polypeptide binding]; other site 416870002499 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 416870002500 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 416870002501 Walker A/P-loop; other site 416870002502 ATP binding site [chemical binding]; other site 416870002503 Q-loop/lid; other site 416870002504 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 416870002505 ABC transporter; Region: ABC_tran_2; pfam12848 416870002506 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 416870002507 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 416870002508 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 416870002509 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870002510 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 416870002511 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 416870002512 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 416870002513 Dihydroorotate dehydrogenase (DHOD) class 1A FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1A_like; cd04741 416870002514 active site 416870002515 FMN binding site [chemical binding]; other site 416870002516 substrate binding site [chemical binding]; other site 416870002517 catalytic residues [active] 416870002518 homodimer interface [polypeptide binding]; other site 416870002519 Predicted membrane protein [Function unknown]; Region: COG4905 416870002520 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 416870002521 Enterocin A Immunity; Region: EntA_Immun; pfam08951 416870002522 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH3; cd08287 416870002523 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 416870002524 catalytic Zn binding site [ion binding]; other site 416870002525 NAD(P) binding site [chemical binding]; other site 416870002526 structural Zn binding site [ion binding]; other site 416870002527 Transcriptional regulators [Transcription]; Region: PurR; COG1609 416870002528 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 416870002529 DNA binding site [nucleotide binding] 416870002530 domain linker motif; other site 416870002531 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 416870002532 ligand binding site [chemical binding]; other site 416870002533 dimerization interface [polypeptide binding]; other site 416870002534 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 416870002535 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 416870002536 substrate binding site [chemical binding]; other site 416870002537 hexamer interface [polypeptide binding]; other site 416870002538 metal binding site [ion binding]; metal-binding site 416870002539 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 416870002540 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 416870002541 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 416870002542 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 416870002543 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 416870002544 YSIRK-targeted surface antigen transcriptional regulator; Region: adjacent_YSIRK; TIGR04094 416870002545 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416870002546 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416870002547 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 416870002548 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 416870002549 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 416870002550 dimerization interface [polypeptide binding]; other site 416870002551 active site 416870002552 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 416870002553 Helix-turn-helix domains; Region: HTH; cl00088 416870002554 putative transporter; Provisional; Region: PRK10504 416870002555 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 416870002556 putative substrate translocation pore; other site 416870002557 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 416870002558 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 416870002559 classical (c) SDRs; Region: SDR_c; cd05233 416870002560 NAD(P) binding site [chemical binding]; other site 416870002561 active site 416870002562 Uncharacterized protein conserved in bacteria (DUF2255); Region: DUF2255; cl01788 416870002563 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 416870002564 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 416870002565 Cupin domain; Region: Cupin_2; cl09118 416870002566 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 416870002567 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 416870002568 ATP binding site [chemical binding]; other site 416870002569 active site 416870002570 substrate binding site [chemical binding]; other site 416870002571 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 416870002572 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 416870002573 imidazole glycerol phosphate synthase, glutamine amidotransferase subunit; Region: IMP_synth_hisH; TIGR01855 416870002574 putative active site [active] 416870002575 catalytic triad [active] 416870002576 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 416870002577 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), first repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat1; cd02203 416870002578 dimerization interface [polypeptide binding]; other site 416870002579 ATP binding site [chemical binding]; other site 416870002580 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 416870002581 dimerization interface [polypeptide binding]; other site 416870002582 ATP binding site [chemical binding]; other site 416870002583 amidophosphoribosyltransferase; Provisional; Region: PRK07272 416870002584 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 416870002585 active site 416870002586 tetramer interface [polypeptide binding]; other site 416870002587 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 416870002588 active site 416870002589 Helix-turn-helix domains; Region: HTH; cl00088 416870002590 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416870002591 Helix-turn-helix domains; Region: HTH; cl00088 416870002592 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416870002593 Helix-turn-helix domains; Region: HTH; cl00088 416870002594 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 416870002595 Clp amino terminal domain; Region: Clp_N; pfam02861 416870002596 Clp amino terminal domain; Region: Clp_N; pfam02861 416870002597 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 416870002598 Walker A motif; other site 416870002599 ATP binding site [chemical binding]; other site 416870002600 Walker B motif; other site 416870002601 arginine finger; other site 416870002602 Centrosome localisation domain of PPC89; Region: Cep57_CLD_2; pfam14197 416870002603 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 416870002604 Walker A motif; other site 416870002605 ATP binding site [chemical binding]; other site 416870002606 Walker B motif; other site 416870002607 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 416870002608 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 416870002609 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 416870002610 dimerization interface [polypeptide binding]; other site 416870002611 putative ATP binding site [chemical binding]; other site 416870002612 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 416870002613 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 416870002614 active site 416870002615 substrate binding site [chemical binding]; other site 416870002616 cosubstrate binding site; other site 416870002617 catalytic site [active] 416870002618 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 416870002619 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 416870002620 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 416870002621 Walker A/P-loop; other site 416870002622 ATP binding site [chemical binding]; other site 416870002623 Q-loop/lid; other site 416870002624 ABC transporter signature motif; other site 416870002625 Walker B; other site 416870002626 D-loop; other site 416870002627 H-loop/switch region; other site 416870002628 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 416870002629 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 416870002630 aldehyde reductase, extended (e) SDRs; Region: AR_SDR_e; cd05227 416870002631 NADP binding site [chemical binding]; other site 416870002632 putative substrate binding site [chemical binding]; other site 416870002633 active site 416870002634 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 416870002635 active site 416870002636 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 416870002637 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 416870002638 purine monophosphate binding site [chemical binding]; other site 416870002639 dimer interface [polypeptide binding]; other site 416870002640 putative catalytic residues [active] 416870002641 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 416870002642 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 416870002643 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 416870002644 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 416870002645 motif II; other site 416870002646 Helix-turn-helix domains; Region: HTH; cl00088 416870002647 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 416870002648 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 416870002649 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 416870002650 ATP-grasp domain; Region: ATP-grasp_4; cl03087 416870002651 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 416870002652 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 416870002653 AIR carboxylase; Region: AIRC; cl00310 416870002654 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 416870002655 ATP-grasp domain; Region: ATP-grasp_4; cl03087 416870002656 Cupin domain; Region: Cupin_2; cl09118 416870002657 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416870002658 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 416870002659 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416870002660 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 416870002661 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 416870002662 Integrase core domain; Region: rve; cl01316 416870002663 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 416870002664 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 416870002665 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 416870002666 Acetokinase family; Region: Acetate_kinase; cl01029 416870002667 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 416870002668 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 416870002669 GMP synthase; Reviewed; Region: guaA; PRK00074 416870002670 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 416870002671 AMP/PPi binding site [chemical binding]; other site 416870002672 candidate oxyanion hole; other site 416870002673 catalytic triad [active] 416870002674 potential glutamine specificity residues [chemical binding]; other site 416870002675 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 416870002676 ATP Binding subdomain [chemical binding]; other site 416870002677 Dimerization subdomain; other site 416870002678 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 416870002679 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 416870002680 dimer interface [polypeptide binding]; other site 416870002681 conserved gate region; other site 416870002682 ABC-ATPase subunit interface; other site 416870002683 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 416870002684 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 416870002685 dimer interface [polypeptide binding]; other site 416870002686 conserved gate region; other site 416870002687 ABC-ATPase subunit interface; other site 416870002688 carbohydrate ABC transporter substrate-binding protein, CPR_0540 family; Region: bind_CPR_0540; TIGR03850 416870002689 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 416870002690 Glycosyl hydrolase family 67 N-terminus; Region: Glyco_hydro_67N; pfam03648 416870002691 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 416870002692 MatE; Region: MatE; cl10513 416870002693 MatE; Region: MatE; cl10513 416870002694 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 416870002695 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 416870002696 Helix-turn-helix domains; Region: HTH; cl00088 416870002697 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 416870002698 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870002699 NAD(P) binding site [chemical binding]; other site 416870002700 active site 416870002701 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 416870002702 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 416870002703 DNA binding residues [nucleotide binding] 416870002704 putative dimer interface [polypeptide binding]; other site 416870002705 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 416870002706 EamA-like transporter family; Region: EamA; cl01037 416870002707 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 416870002708 metal binding site 2 [ion binding]; metal-binding site 416870002709 putative DNA binding helix; other site 416870002710 metal binding site 1 [ion binding]; metal-binding site 416870002711 dimer interface [polypeptide binding]; other site 416870002712 structural Zn2+ binding site [ion binding]; other site 416870002713 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 416870002714 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 416870002715 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 416870002716 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870002717 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 416870002718 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 416870002719 putative DNA binding site [nucleotide binding]; other site 416870002720 putative Zn2+ binding site [ion binding]; other site 416870002721 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 416870002722 dimer interface [polypeptide binding]; other site 416870002723 FMN binding site [chemical binding]; other site 416870002724 Protein of unknown function (DUF1304); Region: DUF1304; cl01533 416870002725 anthranilate synthase component I; Provisional; Region: PRK13570 416870002726 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 416870002727 chorismate binding enzyme; Region: Chorismate_bind; cl10555 416870002728 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 416870002729 Glutamine amidotransferase class-I; Region: GATase; pfam00117 416870002730 glutamine binding [chemical binding]; other site 416870002731 catalytic triad [active] 416870002732 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 416870002733 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 416870002734 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 416870002735 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 416870002736 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 416870002737 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 416870002738 active site 416870002739 ribulose/triose binding site [chemical binding]; other site 416870002740 phosphate binding site [ion binding]; other site 416870002741 substrate (anthranilate) binding pocket [chemical binding]; other site 416870002742 product (indole) binding pocket [chemical binding]; other site 416870002743 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 416870002744 active site 416870002745 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 416870002746 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 416870002747 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 416870002748 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416870002749 catalytic residue [active] 416870002750 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 416870002751 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 416870002752 substrate binding site [chemical binding]; other site 416870002753 active site 416870002754 catalytic residues [active] 416870002755 heterodimer interface [polypeptide binding]; other site 416870002756 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 416870002757 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 416870002758 active site turn [active] 416870002759 phosphorylation site [posttranslational modification] 416870002760 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 416870002761 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cl00162 416870002762 HPr interaction site; other site 416870002763 glycerol kinase (GK) interaction site [polypeptide binding]; other site 416870002764 active site 416870002765 phosphorylation site [posttranslational modification] 416870002766 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 416870002767 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 416870002768 DNA-binding site [nucleotide binding]; DNA binding site 416870002769 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 416870002770 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 416870002771 This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these...; Region: ABC_Pro_Gly_Bertaine; cd03294 416870002772 Walker A/P-loop; other site 416870002773 ATP binding site [chemical binding]; other site 416870002774 Q-loop/lid; other site 416870002775 ABC transporter signature motif; other site 416870002776 Walker B; other site 416870002777 D-loop; other site 416870002778 H-loop/switch region; other site 416870002779 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 416870002780 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 416870002781 dimer interface [polypeptide binding]; other site 416870002782 conserved gate region; other site 416870002783 putative PBP binding loops; other site 416870002784 ABC-ATPase subunit interface; other site 416870002785 NMT1-like family; Region: NMT1_2; cl15260 416870002786 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 416870002787 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 416870002788 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 416870002789 Active Sites [active] 416870002790 Domain of unknown function (DUF3440); Region: DUF3440; pfam11922 416870002791 Domain of unknown function (DUF3440); Region: DUF3440; pfam11922 416870002792 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 416870002793 ParB-like nuclease domain; Region: ParBc; cl02129 416870002794 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 416870002795 non-specific DNA binding site [nucleotide binding]; other site 416870002796 salt bridge; other site 416870002797 sequence-specific DNA binding site [nucleotide binding]; other site 416870002798 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 416870002799 Cation efflux family; Region: Cation_efflux; cl00316 416870002800 Phosphate-starvation-inducible E; Region: PsiE; cl01264 416870002801 pantothenate kinase; Provisional; Region: PRK05439 416870002802 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point in...; Region: PanK; cd02025 416870002803 ATP-binding site [chemical binding]; other site 416870002804 CoA-binding site [chemical binding]; other site 416870002805 Mg2+-binding site [ion binding]; other site 416870002806 Methyltransferase domain; Region: Methyltransf_31; pfam13847 416870002807 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 416870002808 S-adenosylmethionine binding site [chemical binding]; other site 416870002809 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 416870002810 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 416870002811 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 416870002812 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 416870002813 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 416870002814 intersubunit interface [polypeptide binding]; other site 416870002815 active site 416870002816 catalytic residue [active] 416870002817 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 416870002818 active site 416870002819 catalytic motif [active] 416870002820 Zn binding site [ion binding]; other site 416870002821 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 416870002822 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 416870002823 ligand binding site [chemical binding]; other site 416870002824 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 416870002825 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 416870002826 DNA-binding site [nucleotide binding]; DNA binding site 416870002827 UTRA domain; Region: UTRA; cl01230 416870002828 Domain of unknown function (DUF4395); Region: DUF4395; pfam14340 416870002829 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 416870002830 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 416870002831 dimer interface [polypeptide binding]; other site 416870002832 phosphorylation site [posttranslational modification] 416870002833 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 416870002834 ATP binding site [chemical binding]; other site 416870002835 Mg2+ binding site [ion binding]; other site 416870002836 G-X-G motif; other site 416870002837 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 416870002838 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 416870002839 active site 416870002840 phosphorylation site [posttranslational modification] 416870002841 intermolecular recognition site; other site 416870002842 dimerization interface [polypeptide binding]; other site 416870002843 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 416870002844 DNA binding site [nucleotide binding] 416870002845 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 416870002846 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 416870002847 Helix-turn-helix domains; Region: HTH; cl00088 416870002848 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416870002849 Helix-turn-helix domains; Region: HTH; cl00088 416870002850 Helix-turn-helix domains; Region: HTH; cl00088 416870002851 HTH-like domain; Region: HTH_21; pfam13276 416870002852 Integrase core domain; Region: rve; cl01316 416870002853 Integrase core domain; Region: rve_3; cl15866 416870002854 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 416870002855 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 416870002856 Walker A motif; other site 416870002857 ATP binding site [chemical binding]; other site 416870002858 Walker B motif; other site 416870002859 arginine finger; other site 416870002860 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 416870002861 Integrase core domain; Region: rve; cl01316 416870002862 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 416870002863 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 416870002864 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 416870002865 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 416870002866 Protein of unknown function (DUF1093); Region: DUF1093; cl02185 416870002867 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 416870002868 Ligand Binding Site [chemical binding]; other site 416870002869 Protein of unknown function (DUF1304); Region: DUF1304; cl01533 416870002870 TraX protein; Region: TraX; cl05434 416870002871 Protein of unknown function (DUF1211); Region: DUF1211; cl01421 416870002872 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 416870002873 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 416870002874 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 416870002875 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 416870002876 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 416870002877 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 416870002878 motif II; other site 416870002879 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 416870002880 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 416870002881 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 416870002882 catalytic residues [active] 416870002883 dimer interface [polypeptide binding]; other site 416870002884 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 416870002885 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 416870002886 ATP-grasp domain; Region: ATP-grasp_4; cl03087 416870002887 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 416870002888 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 416870002889 ATP-grasp domain; Region: ATP-grasp_4; cl03087 416870002890 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 416870002891 IMP binding site; other site 416870002892 dimer interface [polypeptide binding]; other site 416870002893 interdomain contacts; other site 416870002894 partial ornithine binding site; other site 416870002895 Bacterial protein of unknown function (DUF916); Region: DUF916; pfam06030 416870002896 WxL domain surface cell wall-binding; Region: WxL; pfam13731 416870002897 Bacterial protein of unknown function (DUF916); Region: DUF916; pfam06030 416870002898 Protein of unknown function C-terminal (DUF3324); Region: DUF3324; pfam11797 416870002899 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 416870002900 amphipathic channel; other site 416870002901 Asn-Pro-Ala signature motifs; other site 416870002902 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 416870002903 glycerol kinase; Provisional; Region: glpK; PRK00047 416870002904 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 416870002905 N- and C-terminal domain interface [polypeptide binding]; other site 416870002906 active site 416870002907 MgATP binding site [chemical binding]; other site 416870002908 catalytic site [active] 416870002909 metal binding site [ion binding]; metal-binding site 416870002910 glycerol binding site [chemical binding]; other site 416870002911 homotetramer interface [polypeptide binding]; other site 416870002912 homodimer interface [polypeptide binding]; other site 416870002913 FBP binding site [chemical binding]; other site 416870002914 protein IIAGlc interface [polypeptide binding]; other site 416870002915 PseudoU_synth_RluE: Pseudouridine synthase, Escherichia coli RluE. This group is comprised of bacterial proteins similar to E. coli RluE. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines; Region: PseudoU_synth_RluE; cd02566 416870002916 pseudouridine synthase; Region: TIGR00093 416870002917 probable active site [active] 416870002918 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 416870002919 Repair protein; Region: Repair_PSII; cl01535 416870002920 Protein of unknown function (DUF1407); Region: DUF1407; pfam07191 416870002921 Membrane protease subunit, stomatin/prohibitin family [Amino acid transport and metabolism]; Region: COG4260 416870002922 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_5; cd03408 416870002923 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 416870002924 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 416870002925 Major Facilitator Superfamily; Region: MFS_1; pfam07690 416870002926 putative substrate translocation pore; other site 416870002927 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 416870002928 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 416870002929 FAD binding pocket [chemical binding]; other site 416870002930 FAD binding motif [chemical binding]; other site 416870002931 phosphate binding motif [ion binding]; other site 416870002932 beta-alpha-beta structure motif; other site 416870002933 NAD binding pocket [chemical binding]; other site 416870002934 Iron coordination center [ion binding]; other site 416870002935 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 416870002936 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740 416870002937 heterodimer interface [polypeptide binding]; other site 416870002938 active site 416870002939 FMN binding site [chemical binding]; other site 416870002940 homodimer interface [polypeptide binding]; other site 416870002941 substrate binding site [chemical binding]; other site 416870002942 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 416870002943 active site 416870002944 dimer interface [polypeptide binding]; other site 416870002945 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 416870002946 Methyltransferase domain; Region: Methyltransf_31; pfam13847 416870002947 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 416870002948 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 416870002949 substrate binding pocket [chemical binding]; other site 416870002950 chain length determination region; other site 416870002951 substrate-Mg2+ binding site; other site 416870002952 catalytic residues [active] 416870002953 aspartate-rich region 1; other site 416870002954 active site lid residues [active] 416870002955 aspartate-rich region 2; other site 416870002956 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; cl01973 416870002957 Listerrria innocua Lin0431 is similar to the N-Utilization Substance G (NusG) N terminal (NGN) insert (DII); Region: Lin0431_like; cd09911 416870002958 trimer interface [polypeptide binding]; other site 416870002959 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 416870002960 active site 416870002961 tetramer interface; other site 416870002962 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 416870002963 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870002964 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 416870002965 5-bromo-4-chloroindolyl phosphate hydrolysis protein; Region: Halogen_Hydrol; cl02059 416870002966 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 416870002967 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 416870002968 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 416870002969 active site 416870002970 dimer interface [polypeptide binding]; other site 416870002971 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include bacterial ATP-dependent...; Region: Bacterial_PFK; cd00763 416870002972 active site 416870002973 ADP/pyrophosphate binding site [chemical binding]; other site 416870002974 dimerization interface [polypeptide binding]; other site 416870002975 allosteric effector site; other site 416870002976 fructose-1,6-bisphosphate binding site; other site 416870002977 pyruvate kinase; Provisional; Region: PRK05826 416870002978 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; cd00288 416870002979 domain interfaces; other site 416870002980 active site 416870002981 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 416870002982 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 416870002983 tetramer (dimer of dimers) interface [polypeptide binding]; other site 416870002984 NAD binding site [chemical binding]; other site 416870002985 dimer interface [polypeptide binding]; other site 416870002986 substrate binding site [chemical binding]; other site 416870002987 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 416870002988 TM-ABC transporter signature motif; other site 416870002989 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 416870002990 TM-ABC transporter signature motif; other site 416870002991 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 416870002992 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 416870002993 Walker A/P-loop; other site 416870002994 ATP binding site [chemical binding]; other site 416870002995 Q-loop/lid; other site 416870002996 ABC transporter signature motif; other site 416870002997 Walker B; other site 416870002998 D-loop; other site 416870002999 H-loop/switch region; other site 416870003000 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 416870003001 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 416870003002 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 416870003003 S-adenosylmethionine binding site [chemical binding]; other site 416870003004 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 416870003005 Domain of unknown function (DUF814); Region: DUF814; pfam05670 416870003006 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 416870003007 Lactococcus lactis bacteriophage major structural protein; Region: L_lac_phage_MSP; pfam06488 416870003008 Lactococcus lactis bacteriophage major structural protein; Region: L_lac_phage_MSP; pfam06488 416870003009 Lactococcus lactis bacteriophage major structural protein; Region: L_lac_phage_MSP; pfam06488 416870003010 Lactococcus lactis bacteriophage major structural protein; Region: L_lac_phage_MSP; pfam06488 416870003011 Lactococcus lactis bacteriophage major structural protein; Region: L_lac_phage_MSP; pfam06488 416870003012 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 416870003013 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 416870003014 pullulanase, extracellular, Gram-positive; Region: pullulan_Gpos; TIGR02102 416870003015 Gram positive anchor; Region: Gram_pos_anchor; cl15427 416870003016 Arsenate Reductase (ArsC) family, Spx subfamily; Spx is a unique RNA polymerase (RNAP)-binding protein present in bacilli and some mollicutes. It inhibits transcription by binding to the C-terminal domain of the alpha subunit of RNAP, disrupting complex...; Region: ArsC_Spx; cd03032 416870003017 putative catalytic residues [active] 416870003018 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 416870003019 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870003020 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 416870003021 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 416870003022 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 416870003023 active site 416870003024 metal binding site [ion binding]; metal-binding site 416870003025 DNA binding site [nucleotide binding] 416870003026 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 416870003027 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 416870003028 SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini; Region: ABC_sbcCD; cd03279 416870003029 Walker A/P-loop; other site 416870003030 ATP binding site [chemical binding]; other site 416870003031 Q-loop/lid; other site 416870003032 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 416870003033 ABC transporter signature motif; other site 416870003034 Walker B; other site 416870003035 D-loop; other site 416870003036 H-loop/switch region; other site 416870003037 Domain of unknown function (DUF4176); Region: DUF4176; cl01867 416870003038 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_24; cd09012 416870003039 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 416870003040 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 416870003041 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 416870003042 ABC-ATPase subunit interface; other site 416870003043 dimer interface [polypeptide binding]; other site 416870003044 putative PBP binding regions; other site 416870003045 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 416870003046 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 416870003047 metal binding site [ion binding]; metal-binding site 416870003048 plasmid segregation protein ParM; Provisional; Region: PRK13917 416870003049 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 416870003050 non-specific DNA binding site [nucleotide binding]; other site 416870003051 salt bridge; other site 416870003052 sequence-specific DNA binding site [nucleotide binding]; other site 416870003053 Transposase, Mutator family; Region: Transposase_mut; pfam00872 416870003054 MULE transposase domain; Region: MULE; pfam10551 416870003055 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 416870003056 non-specific DNA binding site [nucleotide binding]; other site 416870003057 salt bridge; other site 416870003058 sequence-specific DNA binding site [nucleotide binding]; other site 416870003059 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 416870003060 putative transposase OrfB; Reviewed; Region: PHA02517 416870003061 HTH-like domain; Region: HTH_21; pfam13276 416870003062 Integrase core domain; Region: rve; cl01316 416870003063 Integrase core domain; Region: rve_3; cl15866 416870003064 Helix-turn-helix domains; Region: HTH; cl00088 416870003065 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 416870003066 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 416870003067 non-specific DNA binding site [nucleotide binding]; other site 416870003068 salt bridge; other site 416870003069 sequence-specific DNA binding site [nucleotide binding]; other site 416870003070 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 416870003071 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870003072 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 416870003073 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 416870003074 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 416870003075 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 416870003076 DNA-binding site [nucleotide binding]; DNA binding site 416870003077 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 416870003078 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416870003079 homodimer interface [polypeptide binding]; other site 416870003080 catalytic residue [active] 416870003081 legume lectins; Region: lectin_L-type; cd01951 416870003082 homotetramer interaction site [polypeptide binding]; other site 416870003083 carbohydrate binding site [chemical binding]; other site 416870003084 metal binding site [ion binding]; metal-binding site 416870003085 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 416870003086 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 416870003087 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 416870003088 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 416870003089 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 416870003090 glutamine binding [chemical binding]; other site 416870003091 catalytic triad [active] 416870003092 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 416870003093 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 416870003094 chorismate binding enzyme; Region: Chorismate_bind; cl10555 416870003095 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 416870003096 substrate-cofactor binding pocket; other site 416870003097 homodimer interface [polypeptide binding]; other site 416870003098 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416870003099 catalytic residue [active] 416870003100 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 416870003101 ArsC family; Region: ArsC; pfam03960 416870003102 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 416870003103 Protein of unknown function (DUF1706); Region: DUF1706; cl01748 416870003104 Protein of unknown function (DUF1706); Region: DUF1706; cl01748 416870003105 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 416870003106 Domain of unknown function (DUF303); Region: DUF303; pfam03629 416870003107 Domain of unknown function (DUF303); Region: DUF303; pfam03629 416870003108 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 416870003109 Domain of unknown function (DUF303); Region: DUF303; pfam03629 416870003110 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 416870003111 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 416870003112 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 416870003113 dimer interface [polypeptide binding]; other site 416870003114 conserved gate region; other site 416870003115 putative PBP binding loops; other site 416870003116 ABC-ATPase subunit interface; other site 416870003117 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 416870003118 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 416870003119 dimer interface [polypeptide binding]; other site 416870003120 conserved gate region; other site 416870003121 putative PBP binding loops; other site 416870003122 ABC-ATPase subunit interface; other site 416870003123 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 416870003124 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 416870003125 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 416870003126 NodB motif; other site 416870003127 active site 416870003128 catalytic site [active] 416870003129 metal binding site [ion binding]; metal-binding site 416870003130 Alpha-glucuronidase [Carbohydrate transport and metabolism]; Region: AguA; COG3661 416870003131 Glycosyl hydrolase family 67 C-terminus; Region: Glyco_hydro_67C; pfam07477 416870003132 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 416870003133 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 416870003134 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 416870003135 active site 416870003136 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 416870003137 Helix-turn-helix domains; Region: HTH; cl00088 416870003138 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 416870003139 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 416870003140 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 416870003141 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 416870003142 GTP/Mg2+ binding site [chemical binding]; other site 416870003143 G4 box; other site 416870003144 G5 box; other site 416870003145 G1 box; other site 416870003146 Switch I region; other site 416870003147 G2 box; other site 416870003148 G3 box; other site 416870003149 Switch II region; other site 416870003150 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 416870003151 RNA/DNA hybrid binding site [nucleotide binding]; other site 416870003152 active site 416870003153 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 416870003154 non-specific DNA binding site [nucleotide binding]; other site 416870003155 salt bridge; other site 416870003156 sequence-specific DNA binding site [nucleotide binding]; other site 416870003157 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 416870003158 glutamate:gamma-aminobutyrate antiporter; Region: 2A0307_GadC; TIGR00910 416870003159 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 416870003160 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 416870003161 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416870003162 catalytic residue [active] 416870003163 Mechanosensitive ion channel; Region: MS_channel; pfam00924 416870003164 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 416870003165 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 416870003166 homodimer interface [polypeptide binding]; other site 416870003167 substrate-cofactor binding pocket; other site 416870003168 catalytic residue [active] 416870003169 galactoside O-acetyltransferase; Reviewed; Region: lacA; PRK09527 416870003170 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 416870003171 active site 416870003172 substrate binding site [chemical binding]; other site 416870003173 trimer interface [polypeptide binding]; other site 416870003174 CoA binding site [chemical binding]; other site 416870003175 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 416870003176 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 416870003177 active site 416870003178 dimer interface [polypeptide binding]; other site 416870003179 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 416870003180 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 416870003181 active site 416870003182 FMN binding site [chemical binding]; other site 416870003183 substrate binding site [chemical binding]; other site 416870003184 3Fe-4S cluster binding site [ion binding]; other site 416870003185 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 416870003186 domain interface; other site 416870003187 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 416870003188 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870003189 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 416870003190 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 416870003191 active site 416870003192 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 416870003193 substrate binding site [chemical binding]; other site 416870003194 catalytic residues [active] 416870003195 dimer interface [polypeptide binding]; other site 416870003196 Uncharacterized protein family (UPF0154); Region: UPF0154; cl01536 416870003197 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 416870003198 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 416870003199 active site 416870003200 dimerization interface [polypeptide binding]; other site 416870003201 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 416870003202 active site 416870003203 metal binding site [ion binding]; metal-binding site 416870003204 homotetramer interface [polypeptide binding]; other site 416870003205 FOG: CBS domain [General function prediction only]; Region: COG0517 416870003206 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_30; cd04643 416870003207 site-specific tyrosine recombinase XerD-like protein; Reviewed; Region: xerD; PRK02436 416870003208 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 416870003209 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 416870003210 DNA binding site [nucleotide binding] 416870003211 Int/Topo IB signature motif; other site 416870003212 active site 416870003213 catalytic residues [active] 416870003214 ScpA/B protein; Region: ScpA_ScpB; cl00598 416870003215 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 416870003216 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 416870003217 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 416870003218 RNA binding surface [nucleotide binding]; other site 416870003219 Pseudouridine synthases are responsible for the synthesis of pseudouridine from uracil in ribosomal RNA. The RsuA subfamily includes Pseudouridine Synthase similar to Ribosomal small subunit pseudouridine 516 synthase. Most of the proteins in this...; Region: PseudoU_synth_RsuA_like; cd02870 416870003220 active site 416870003221 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 416870003222 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 416870003223 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 416870003224 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 416870003225 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 416870003226 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 416870003227 Walker A/P-loop; other site 416870003228 ATP binding site [chemical binding]; other site 416870003229 Q-loop/lid; other site 416870003230 ABC transporter signature motif; other site 416870003231 Walker B; other site 416870003232 D-loop; other site 416870003233 H-loop/switch region; other site 416870003234 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 416870003235 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 416870003236 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and...; Region: ABCC_Glucan_exporter_like; cd03254 416870003237 Walker A/P-loop; other site 416870003238 ATP binding site [chemical binding]; other site 416870003239 Q-loop/lid; other site 416870003240 ABC transporter signature motif; other site 416870003241 Walker B; other site 416870003242 D-loop; other site 416870003243 H-loop/switch region; other site 416870003244 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 416870003245 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 416870003246 non-specific DNA binding site [nucleotide binding]; other site 416870003247 salt bridge; other site 416870003248 sequence-specific DNA binding site [nucleotide binding]; other site 416870003249 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 416870003250 Catalytic site [active] 416870003251 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 416870003252 23S rRNA interface [nucleotide binding]; other site 416870003253 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 416870003254 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 416870003255 core dimer interface [polypeptide binding]; other site 416870003256 peripheral dimer interface [polypeptide binding]; other site 416870003257 L10 interface [polypeptide binding]; other site 416870003258 L11 interface [polypeptide binding]; other site 416870003259 putative EF-Tu interaction site [polypeptide binding]; other site 416870003260 putative EF-G interaction site [polypeptide binding]; other site 416870003261 Helix-turn-helix domains; Region: HTH; cl00088 416870003262 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 416870003263 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 416870003264 putative substrate translocation pore; other site 416870003265 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 416870003266 N-acetyl-glucosamine transferase is involved in the synthesis of Poly-beta-1,6-N-acetyl-D-glucosamine; Region: GlcNAc-1-P_transferase; cd06436 416870003267 DXD motif; other site 416870003268 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 416870003269 substrate binding site [chemical binding]; other site 416870003270 multimerization interface [polypeptide binding]; other site 416870003271 ATP binding site [chemical binding]; other site 416870003272 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 416870003273 substrate binding site [chemical binding]; other site 416870003274 dimer interface [polypeptide binding]; other site 416870003275 ATP binding site [chemical binding]; other site 416870003276 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 416870003277 thiamine phosphate binding site [chemical binding]; other site 416870003278 active site 416870003279 pyrophosphate binding site [ion binding]; other site 416870003280 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 416870003281 AMP-binding enzyme; Region: AMP-binding; cl15778 416870003282 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 416870003283 Phosphopantetheine attachment site; Region: PP-binding; cl09936 416870003284 Protein involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltD; COG3966 416870003285 DltD N-terminal region; Region: DltD_N; pfam04915 416870003286 DltD central region; Region: DltD_M; pfam04918 416870003287 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 416870003288 magnesium-transporting ATPase; Provisional; Region: PRK15122 416870003289 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 416870003290 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 416870003291 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 416870003292 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 416870003293 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 416870003294 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 416870003295 Helix-turn-helix domains; Region: HTH; cl00088 416870003296 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 416870003297 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 416870003298 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 416870003299 THF binding site; other site 416870003300 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 416870003301 substrate binding site [chemical binding]; other site 416870003302 THF binding site; other site 416870003303 zinc-binding site [ion binding]; other site 416870003304 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 416870003305 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 416870003306 FAD binding site [chemical binding]; other site 416870003307 NeuB family; Region: NeuB; cl00496 416870003308 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 416870003309 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416870003310 Helix-turn-helix domains; Region: HTH; cl00088 416870003311 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416870003312 Helix-turn-helix domains; Region: HTH; cl00088 416870003313 Helix-turn-helix domains; Region: HTH; cl00088 416870003314 putative transposase OrfB; Reviewed; Region: PHA02517 416870003315 HTH-like domain; Region: HTH_21; pfam13276 416870003316 Integrase core domain; Region: rve; cl01316 416870003317 Integrase core domain; Region: rve_3; cl15866 416870003318 Helix-turn-helix domains; Region: HTH; cl00088 416870003319 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 416870003320 DNA-binding transcriptional activator YeiL; Provisional; Region: PRK10402 416870003321 ligand binding site [chemical binding]; other site 416870003322 flexible hinge region; other site 416870003323 Predicted membrane protein [Function unknown]; Region: COG2364 416870003324 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 416870003325 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870003326 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 416870003327 DNA-binding site [nucleotide binding]; DNA binding site 416870003328 RNA-binding motif; other site 416870003329 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 416870003330 dimer interface [polypeptide binding]; other site 416870003331 active site 416870003332 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 416870003333 dimer interface [polypeptide binding]; other site 416870003334 active site 416870003335 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 416870003336 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 416870003337 N-terminal Early set domain associated with the catalytic domain of cellulase; Region: E_set_Cellulase_N; cd02850 416870003338 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 416870003339 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 416870003340 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 416870003341 active site 416870003342 motif I; other site 416870003343 motif II; other site 416870003344 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 416870003345 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 416870003346 dimerization interface [polypeptide binding]; other site 416870003347 putative DNA binding site [nucleotide binding]; other site 416870003348 putative Zn2+ binding site [ion binding]; other site 416870003349 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 416870003350 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 416870003351 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 416870003352 P loop; other site 416870003353 Nucleotide binding site [chemical binding]; other site 416870003354 DTAP/Switch II; other site 416870003355 Switch I; other site 416870003356 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 416870003357 P loop; other site 416870003358 Nucleotide binding site [chemical binding]; other site 416870003359 DTAP/Switch II; other site 416870003360 Switch I; other site 416870003361 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 416870003362 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 416870003363 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 416870003364 Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar...; Region: RHOD_Pyr_redox; cd01524 416870003365 active site residue [active] 416870003366 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 416870003367 Membrane transport protein; Region: Mem_trans; cl09117 416870003368 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 416870003369 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 416870003370 DNA binding residues [nucleotide binding] 416870003371 putative dimer interface [polypeptide binding]; other site 416870003372 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 416870003373 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 416870003374 active site 416870003375 catalytic tetrad [active] 416870003376 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 416870003377 DNA-binding site [nucleotide binding]; DNA binding site 416870003378 RNA-binding motif; other site 416870003379 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 416870003380 DNA-binding site [nucleotide binding]; DNA binding site 416870003381 RNA-binding motif; other site 416870003382 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 416870003383 Small integral membrane protein (DUF2273); Region: DUF2273; cl11575 416870003384 Asp23 family; Region: Asp23; cl00574 416870003385 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 416870003386 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 416870003387 Walker A motif; other site 416870003388 ATP binding site [chemical binding]; other site 416870003389 Walker B motif; other site 416870003390 arginine finger; other site 416870003391 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 416870003392 Integrase core domain; Region: rve; cl01316 416870003393 Asp23 family; Region: Asp23; cl00574 416870003394 Helix-turn-helix domains; Region: HTH; cl00088 416870003395 HTH-like domain; Region: HTH_21; pfam13276 416870003396 Integrase core domain; Region: rve; cl01316 416870003397 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 416870003398 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 416870003399 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 416870003400 DNA binding site [nucleotide binding] 416870003401 Int/Topo IB signature motif; other site 416870003402 active site 416870003403 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 416870003404 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 416870003405 DNA binding site [nucleotide binding] 416870003406 Int/Topo IB signature motif; other site 416870003407 active site 416870003408 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 416870003409 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870003410 DNA topoisomerase I; Validated; Region: PRK05582 416870003411 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 416870003412 active site 416870003413 interdomain interaction site; other site 416870003414 putative metal-binding site [ion binding]; other site 416870003415 nucleotide binding site [chemical binding]; other site 416870003416 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 416870003417 domain I; other site 416870003418 DNA binding groove [nucleotide binding] 416870003419 phosphate binding site [ion binding]; other site 416870003420 domain II; other site 416870003421 domain III; other site 416870003422 nucleotide binding site [chemical binding]; other site 416870003423 catalytic site [active] 416870003424 domain IV; other site 416870003425 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 416870003426 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 416870003427 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 416870003428 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 416870003429 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 416870003430 homotrimer interaction site [polypeptide binding]; other site 416870003431 putative active site [active] 416870003432 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; cl01408 416870003433 threonine dehydratase; Validated; Region: PRK08639 416870003434 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 416870003435 tetramer interface [polypeptide binding]; other site 416870003436 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416870003437 catalytic residue [active] 416870003438 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 416870003439 ketol-acid reductoisomerase; Provisional; Region: PRK05479 416870003440 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870003441 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 416870003442 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 416870003443 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 416870003444 putative valine binding site [chemical binding]; other site 416870003445 dimer interface [polypeptide binding]; other site 416870003446 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 416870003447 acetolactate synthase catalytic subunit; Reviewed; Region: PRK07282 416870003448 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 416870003449 PYR/PP interface [polypeptide binding]; other site 416870003450 dimer interface [polypeptide binding]; other site 416870003451 TPP binding site [chemical binding]; other site 416870003452 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 416870003453 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 416870003454 TPP-binding site [chemical binding]; other site 416870003455 dimer interface [polypeptide binding]; other site 416870003456 Dehydratase family; Region: ILVD_EDD; cl00340 416870003457 ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]; Region: ModF; COG1119 416870003458 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 416870003459 Walker A/P-loop; other site 416870003460 ATP binding site [chemical binding]; other site 416870003461 Q-loop/lid; other site 416870003462 ABC transporter signature motif; other site 416870003463 Walker B; other site 416870003464 D-loop; other site 416870003465 H-loop/switch region; other site 416870003466 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 416870003467 substrate binding site [chemical binding]; other site 416870003468 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 416870003469 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 416870003470 substrate binding site [chemical binding]; other site 416870003471 ligand binding site [chemical binding]; other site 416870003472 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 416870003473 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 416870003474 active site residue [active] 416870003475 Protein of unknown function (DUF3650); Region: DUF3650; pfam12368 416870003476 histidinol phosphate phosphatase, HisJ family; Region: hisJ_fam; TIGR01856 416870003477 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 416870003478 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 416870003479 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 416870003480 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 416870003481 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 416870003482 substrate binding site [chemical binding]; other site 416870003483 glutamase interaction surface [polypeptide binding]; other site 416870003484 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 416870003485 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 416870003486 catalytic residues [active] 416870003487 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 416870003488 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 416870003489 putative active site [active] 416870003490 oxyanion strand; other site 416870003491 catalytic triad [active] 416870003492 Aminoglycoside 3'-phosphotransferase (APH). The APH subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase; Region: APH; cd05150 416870003493 active site 416870003494 ATP binding site [chemical binding]; other site 416870003495 Phosphotransferase enzyme family; Region: APH; pfam01636 416870003496 antibiotic binding site [chemical binding]; other site 416870003497 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 416870003498 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 416870003499 putative active site pocket [active] 416870003500 4-fold oligomerization interface [polypeptide binding]; other site 416870003501 metal binding residues [ion binding]; metal-binding site 416870003502 3-fold/trimer interface [polypeptide binding]; other site 416870003503 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 416870003504 histidinol dehydrogenase; Region: hisD; TIGR00069 416870003505 NAD binding site [chemical binding]; other site 416870003506 dimerization interface [polypeptide binding]; other site 416870003507 product binding site; other site 416870003508 substrate binding site [chemical binding]; other site 416870003509 zinc binding site [ion binding]; other site 416870003510 catalytic residues [active] 416870003511 ATP phosphoribosyltransferase; Region: HisG; cl15266 416870003512 ATP phosphoribosyltransferase, regulatory subunit; Region: hisZ_biosyn_reg; TIGR00443 416870003513 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 416870003514 dimer interface [polypeptide binding]; other site 416870003515 motif 1; other site 416870003516 active site 416870003517 motif 2; other site 416870003518 motif 3; other site 416870003519 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 416870003520 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 416870003521 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416870003522 homodimer interface [polypeptide binding]; other site 416870003523 catalytic residue [active] 416870003524 Phospholipid methyltransferase; Region: PEMT; cl00763 416870003525 Phospholipid methyltransferase; Region: PEMT; cl00763 416870003526 DAK2 domain; Region: Dak2; cl03685 416870003527 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 416870003528 Predicted membrane protein (DUF2177); Region: DUF2177; cl02014 416870003529 TspO/MBR family; Region: TspO_MBR; cl01379 416870003530 ribonuclease R; Region: RNase_R; TIGR02063 416870003531 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 416870003532 RNB domain; Region: RNB; pfam00773 416870003533 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an important...; Region: S1_RNase_R; cd04471 416870003534 RNA binding site [nucleotide binding]; other site 416870003535 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 416870003536 non-specific DNA binding site [nucleotide binding]; other site 416870003537 salt bridge; other site 416870003538 sequence-specific DNA binding site [nucleotide binding]; other site 416870003539 legume lectins; Region: lectin_L-type; cl14058 416870003540 carbohydrate binding site [chemical binding]; other site 416870003541 metal binding site [ion binding]; metal-binding site 416870003542 Collagen-binding protein B domain, mediates bacterial adherence to collagen; the primary sequence has a non-repetitive, collagen-binding A region, followed by the repetitive B region; the B region has one to four 23 kDa repeat units (B1-B4). The B repeat...; Region: CollagenBindB; cd00222 416870003543 putative Ca2+ binding sites [ion binding]; other site 416870003544 domain interaction interfaces; other site 416870003545 putative ligand binding motif; other site 416870003546 acetolactate synthase; Reviewed; Region: PRK08617 416870003547 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 416870003548 PYR/PP interface [polypeptide binding]; other site 416870003549 dimer interface [polypeptide binding]; other site 416870003550 TPP binding site [chemical binding]; other site 416870003551 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 416870003552 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 416870003553 TPP-binding site [chemical binding]; other site 416870003554 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 416870003555 binding surface 416870003556 TPR motif; other site 416870003557 Tetratricopeptide repeat; Region: TPR_12; pfam13424 416870003558 Tetratricopeptide repeat; Region: TPR_12; pfam13424 416870003559 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 416870003560 binding surface 416870003561 TPR motif; other site 416870003562 Domain of unknown function DUF20; Region: UPF0118; pfam01594 416870003563 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 416870003564 Methyltransferase domain; Region: Methyltransf_31; pfam13847 416870003565 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 416870003566 S-adenosylmethionine binding site [chemical binding]; other site 416870003567 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 416870003568 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 416870003569 TRAM domain; Region: TRAM; cl01282 416870003570 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 416870003571 S-adenosylmethionine binding site [chemical binding]; other site 416870003572 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 416870003573 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 416870003574 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 416870003575 putative active site [active] 416870003576 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 416870003577 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 416870003578 putative active site cavity [active] 416870003579 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 416870003580 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 416870003581 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 416870003582 Transposase, Mutator family; Region: Transposase_mut; pfam00872 416870003583 MULE transposase domain; Region: MULE; pfam10551 416870003584 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 416870003585 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 416870003586 active site 416870003587 Endoglucanase [Carbohydrate transport and metabolism]; Region: BglC; COG2730 416870003588 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 416870003589 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 416870003590 putative substrate translocation pore; other site 416870003591 Transposase, Mutator family; Region: Transposase_mut; pfam00872 416870003592 MULE transposase domain; Region: MULE; pfam10551 416870003593 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 416870003594 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416870003595 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 416870003596 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 416870003597 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 416870003598 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 416870003599 dimer interface [polypeptide binding]; other site 416870003600 conserved gate region; other site 416870003601 putative PBP binding loops; other site 416870003602 ABC-ATPase subunit interface; other site 416870003603 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 416870003604 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 416870003605 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 416870003606 Walker A/P-loop; other site 416870003607 ATP binding site [chemical binding]; other site 416870003608 Q-loop/lid; other site 416870003609 ABC transporter signature motif; other site 416870003610 Walker B; other site 416870003611 D-loop; other site 416870003612 H-loop/switch region; other site 416870003613 TOBE domain; Region: TOBE_2; cl01440 416870003614 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 416870003615 FAD binding domain; Region: FAD_binding_4; pfam01565 416870003616 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 416870003617 homoserine kinase; Provisional; Region: PRK01212 416870003618 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 416870003619 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 416870003620 homoserine dehydrogenase; Provisional; Region: PRK06349 416870003621 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870003622 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 416870003623 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 416870003624 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 416870003625 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 416870003626 Substrate-binding site [chemical binding]; other site 416870003627 Substrate specificity [chemical binding]; other site 416870003628 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 416870003629 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 416870003630 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 416870003631 nudix motif; other site 416870003632 GTP-binding protein YchF; Reviewed; Region: PRK09601 416870003633 dihydropteroate synthase; Region: DHPS; TIGR01496 416870003634 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 416870003635 substrate binding pocket [chemical binding]; other site 416870003636 dimer interface [polypeptide binding]; other site 416870003637 inhibitor binding site; inhibition site 416870003638 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 416870003639 catalytic center binding site [active] 416870003640 ATP binding site [chemical binding]; other site 416870003641 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 416870003642 GTP cyclohydrolase I; Provisional; Region: PLN03044 416870003643 active site 416870003644 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 416870003645 active site 416870003646 Predicted GTPase [General function prediction only]; Region: COG0218 416870003647 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 416870003648 G1 box; other site 416870003649 GTP/Mg2+ binding site [chemical binding]; other site 416870003650 Switch I region; other site 416870003651 G2 box; other site 416870003652 G3 box; other site 416870003653 Switch II region; other site 416870003654 G4 box; other site 416870003655 G5 box; other site 416870003656 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 416870003657 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 416870003658 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 416870003659 Walker A motif; other site 416870003660 ATP binding site [chemical binding]; other site 416870003661 Walker B motif; other site 416870003662 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 416870003663 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 416870003664 folate binding site [chemical binding]; other site 416870003665 NADP+ binding site [chemical binding]; other site 416870003666 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 416870003667 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 416870003668 xanthine permease; Region: pbuX; TIGR03173 416870003669 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 416870003670 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 416870003671 active site 416870003672 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 416870003673 non-specific DNA binding site [nucleotide binding]; other site 416870003674 salt bridge; other site 416870003675 sequence-specific DNA binding site [nucleotide binding]; other site 416870003676 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 416870003677 Integral membrane protein TerC family; Region: TerC; cl10468 416870003678 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 416870003679 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 416870003680 putative metal binding site [ion binding]; other site 416870003681 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 416870003682 putative metal binding site [ion binding]; other site 416870003683 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 416870003684 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 416870003685 putative metal binding site [ion binding]; other site 416870003686 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 416870003687 Domain of unknown function (DUF4356); Region: DUF4356; pfam14266 416870003688 mannosyl-3-phosphoglycerate phosphatase; Reviewed; Region: PRK00192 416870003689 Protein of unknown function (DUF2983); Region: DUF2983; pfam11202 416870003690 Protein of unknown function (DUF3706); Region: DUF3706; pfam12500 416870003691 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 416870003692 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 416870003693 non-specific DNA binding site [nucleotide binding]; other site 416870003694 salt bridge; other site 416870003695 sequence-specific DNA binding site [nucleotide binding]; other site 416870003696 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 416870003697 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 416870003698 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 416870003699 DNA binding site [nucleotide binding] 416870003700 Int/Topo IB signature motif; other site 416870003701 active site 416870003702 putative transposase OrfB; Reviewed; Region: PHA02517 416870003703 HTH-like domain; Region: HTH_21; pfam13276 416870003704 Integrase core domain; Region: rve; cl01316 416870003705 Integrase core domain; Region: rve_3; cl15866 416870003706 Helix-turn-helix domains; Region: HTH; cl00088 416870003707 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 416870003708 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 416870003709 putative active site [active] 416870003710 putative NTP binding site [chemical binding]; other site 416870003711 putative nucleic acid binding site [nucleotide binding]; other site 416870003712 Type II intron maturase; Region: Intron_maturas2; pfam01348 416870003713 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 416870003714 DNA topoisomerase I; Validated; Region: PRK07219 416870003715 Protein of unknown function (DUF3990); Region: DUF3990; pfam13151 416870003716 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 416870003717 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 416870003718 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 416870003719 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 416870003720 Walker A motif; other site 416870003721 ATP binding site [chemical binding]; other site 416870003722 Walker B motif; other site 416870003723 NlpC/P60 family; Region: NLPC_P60; cl11438 416870003724 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 416870003725 Domain of unknown function DUF87; Region: DUF87; pfam01935 416870003726 AAA-like domain; Region: AAA_10; pfam12846 416870003727 L-rhamnose-proton symport protein (RhaT); Region: RhaT; cl05728 416870003728 Glucan-binding protein C; Region: GbpC; pfam08363 416870003729 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 416870003730 HSP70 interaction site [polypeptide binding]; other site 416870003731 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 416870003732 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 416870003733 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 416870003734 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 416870003735 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 416870003736 active site 416870003737 Protein of unknown function (DUF1461); Region: DUF1461; cl01862 416870003738 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 416870003739 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 416870003740 active site 416870003741 motif I; other site 416870003742 motif II; other site 416870003743 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 416870003744 Acyl-ACP thioesterase [Lipid metabolism]; Region: FatA; COG3884 416870003745 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 416870003746 active site 416870003747 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 416870003748 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 416870003749 catalytic motif [active] 416870003750 Zn binding site [ion binding]; other site 416870003751 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 416870003752 PlyB is a bacteriophage endolysin that displays potent lytic activity toward Bacillus anthracis. PlyB has an N-terminal glycosyl hydrolase family 25 (GH25) catalytic domain and a C-terminal bacterial SH3-like domain, SH3b. Both domains are required for...; Region: GH25_PlyB-like; cd06523 416870003753 active site 416870003754 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 416870003755 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 416870003756 FeS/SAM binding site; other site 416870003757 HemN C-terminal domain; Region: HemN_C; pfam06969 416870003758 ParB-like nuclease domain; Region: ParBc; cl02129 416870003759 Predicted phosphoadenosine phosphosulfate sulfotransferase [General function prediction only]; Region: COG3969 416870003760 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 416870003761 Active Sites [active] 416870003762 Domain of unknown function (DUF3440); Region: DUF3440; pfam11922 416870003763 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 416870003764 Penicillin V acylase (PVA), also known as conjugated bile salt acid hydrolase (CBAH), catalyzes the hydrolysis of penicillin V to yield 6-amino penicillanic acid (6-APA), an important key intermediate of semisynthetic penicillins. PVA has an N-terminal...; Region: Ntn_PVA; cd00542 416870003765 active site 416870003766 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 416870003767 substrate binding site [chemical binding]; other site 416870003768 dimer interface [polypeptide binding]; other site 416870003769 catalytic triad [active] 416870003770 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 416870003771 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 416870003772 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 416870003773 putative active site [active] 416870003774 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 416870003775 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 416870003776 active site turn [active] 416870003777 phosphorylation site [posttranslational modification] 416870003778 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 416870003779 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cd00210 416870003780 HPr interaction site; other site 416870003781 glycerol kinase (GK) interaction site [polypeptide binding]; other site 416870003782 active site 416870003783 phosphorylation site [posttranslational modification] 416870003784 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 416870003785 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 416870003786 putative active site [active] 416870003787 Bacterial protein of unknown function (DUF871); Region: DUF871; cl15404 416870003788 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 416870003789 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 416870003790 dimer interface [polypeptide binding]; other site 416870003791 tetramer (dimer of dimers) interface [polypeptide binding]; other site 416870003792 NAD binding site [chemical binding]; other site 416870003793 substrate binding site [chemical binding]; other site 416870003794 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 416870003795 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 416870003796 active site 416870003797 Riboflavin kinase; Region: Flavokinase; cl03312 416870003798 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK02484 416870003799 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific...; Region: PseudoU_synth_EcTruB; cd02573 416870003800 RNA binding site [nucleotide binding]; other site 416870003801 active site 416870003802 Bacterial protein of unknown function (DUF916); Region: DUF916; pfam06030 416870003803 putative transposase OrfB; Reviewed; Region: PHA02517 416870003804 HTH-like domain; Region: HTH_21; pfam13276 416870003805 Integrase core domain; Region: rve; cl01316 416870003806 Integrase core domain; Region: rve_3; cl15866 416870003807 Helix-turn-helix domains; Region: HTH; cl00088 416870003808 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 416870003809 fumarate reductase flavoprotein subunit; Validated; Region: PRK06481 416870003810 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870003811 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 416870003812 dimer interface [polypeptide binding]; other site 416870003813 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 416870003814 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 416870003815 putative active site [active] 416870003816 nucleotide binding site [chemical binding]; other site 416870003817 nudix motif; other site 416870003818 putative metal binding site [ion binding]; other site 416870003819 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 416870003820 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 416870003821 Family description; Region: UvrD_C_2; cl15862 416870003822 Protein of unknown function (DUF998); Region: DUF998; pfam06197 416870003823 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 416870003824 Uncharacterized conserved protein [Function unknown]; Region: COG2898 416870003825 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 416870003826 Lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]; Region: LysU; COG1190 416870003827 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 416870003828 dimer interface [polypeptide binding]; other site 416870003829 putative anticodon binding site; other site 416870003830 Sortase A (SrtA) or subfamily-1 sortases are cysteine transpeptidases found in gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the...; Region: Sortase_A_1; cd06165 416870003831 active site 416870003832 catalytic site [active] 416870003833 ApbE family; Region: ApbE; cl00643 416870003834 DNA gyrase subunit A; Validated; Region: PRK05560 416870003835 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 416870003836 CAP-like domain; other site 416870003837 active site 416870003838 primary dimer interface [polypeptide binding]; other site 416870003839 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 416870003840 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 416870003841 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 416870003842 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 416870003843 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 416870003844 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 416870003845 Amino acid permease; Region: AA_permease_2; pfam13520 416870003846 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 416870003847 NADH(P)-binding; Region: NAD_binding_10; pfam13460 416870003848 NAD(P) binding site [chemical binding]; other site 416870003849 putative active site [active] 416870003850 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 416870003851 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 416870003852 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 416870003853 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 416870003854 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 416870003855 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 416870003856 Fibronectin type III-like domain; Region: Fn3-like; cl15273 416870003857 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 416870003858 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 416870003859 Walker A/P-loop; other site 416870003860 ATP binding site [chemical binding]; other site 416870003861 Q-loop/lid; other site 416870003862 ABC transporter signature motif; other site 416870003863 Walker B; other site 416870003864 D-loop; other site 416870003865 H-loop/switch region; other site 416870003866 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 416870003867 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 416870003868 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 416870003869 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 416870003870 dimer interface [polypeptide binding]; other site 416870003871 conserved gate region; other site 416870003872 putative PBP binding loops; other site 416870003873 ABC-ATPase subunit interface; other site 416870003874 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 416870003875 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 416870003876 dimer interface [polypeptide binding]; other site 416870003877 conserved gate region; other site 416870003878 putative PBP binding loops; other site 416870003879 ABC-ATPase subunit interface; other site 416870003880 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 416870003881 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 416870003882 Walker A/P-loop; other site 416870003883 ATP binding site [chemical binding]; other site 416870003884 Q-loop/lid; other site 416870003885 ABC transporter signature motif; other site 416870003886 Walker B; other site 416870003887 D-loop; other site 416870003888 H-loop/switch region; other site 416870003889 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 416870003890 The substrate binding domain of a cellulose-binding protein from Thermotoga maritima contains the type 2 periplasmic binding fold; Region: PBP2_TmCBP_oligosaccharides_like; cd08509 416870003891 substrate binding site [chemical binding]; other site 416870003892 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 416870003893 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 416870003894 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 416870003895 putative active site [active] 416870003896 GTP-binding protein LepA; Provisional; Region: PRK05433 416870003897 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 416870003898 G1 box; other site 416870003899 putative GEF interaction site [polypeptide binding]; other site 416870003900 GTP/Mg2+ binding site [chemical binding]; other site 416870003901 Switch I region; other site 416870003902 G2 box; other site 416870003903 G3 box; other site 416870003904 Switch II region; other site 416870003905 G4 box; other site 416870003906 G5 box; other site 416870003907 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 416870003908 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 416870003909 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 416870003910 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; cl01408 416870003911 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 416870003912 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 416870003913 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 416870003914 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 416870003915 catalytic triad [active] 416870003916 FtsX-like permease family; Region: FtsX; cl15850 416870003917 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 416870003918 FtsX-like permease family; Region: FtsX; cl15850 416870003919 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 416870003920 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 416870003921 Walker A/P-loop; other site 416870003922 ATP binding site [chemical binding]; other site 416870003923 Q-loop/lid; other site 416870003924 ABC transporter signature motif; other site 416870003925 Walker B; other site 416870003926 D-loop; other site 416870003927 H-loop/switch region; other site 416870003928 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 416870003929 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 416870003930 homodimer interface [polypeptide binding]; other site 416870003931 NAD binding pocket [chemical binding]; other site 416870003932 ATP binding pocket [chemical binding]; other site 416870003933 Mg binding site [ion binding]; other site 416870003934 active-site loop [active] 416870003935 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 416870003936 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416870003937 Coenzyme A binding pocket [chemical binding]; other site 416870003938 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 416870003939 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 416870003940 active site 416870003941 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 416870003942 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 416870003943 active site 416870003944 (T/H)XGH motif; other site 416870003945 ClC sycA-like chloride channel proteins. This ClC family presents in bacteria, where it facilitates acid resistance in acidic soil. Mutation of this gene (sycA) in Rhizobium tropici CIAT899 causes serious deficiencies in nodule development, nodulation...; Region: ClC_sycA_like; cd03682 416870003946 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 416870003947 putative Cl- selectivity filter; other site 416870003948 putative pore gating glutamate residue; other site 416870003949 Bacterial protein of unknown function (DUF896); Region: DUF896; cl01722 416870003950 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 416870003951 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 416870003952 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 416870003953 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 416870003954 motif 1; other site 416870003955 dimer interface [polypeptide binding]; other site 416870003956 active site 416870003957 motif 2; other site 416870003958 motif 3; other site 416870003959 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 416870003960 active site 416870003961 metal binding site [ion binding]; metal-binding site 416870003962 Integral membrane protein TerC family; Region: TerC; cl10468 416870003963 VanZ like family; Region: VanZ; cl01971 416870003964 Uncharacterized conserved protein [Function unknown]; Region: COG1739 416870003965 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 416870003966 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 416870003967 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 416870003968 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 416870003969 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 416870003970 Bacterial protein of unknown function (DUF925); Region: DUF925; cl01435 416870003971 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 416870003972 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 416870003973 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_18; cd04677 416870003974 nudix motif; other site 416870003975 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 416870003976 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 416870003977 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 416870003978 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 416870003979 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 416870003980 Protein of unknown function (DUF464); Region: DUF464; cl01080 416870003981 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 416870003982 Predicted membrane protein [Function unknown]; Region: COG3371 416870003983 Domain of unknown function (DUF1934); Region: DUF1934; cl01870 416870003984 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 416870003985 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 416870003986 Zn2+ binding site [ion binding]; other site 416870003987 Mg2+ binding site [ion binding]; other site 416870003988 sugar phosphate phosphatase; Provisional; Region: PRK10513 416870003989 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 416870003990 active site 416870003991 motif I; other site 416870003992 motif II; other site 416870003993 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 416870003994 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4918 416870003995 Uncharacterized conserved protein [Function unknown]; Region: COG0327 416870003996 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 416870003997 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870003998 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 416870003999 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 416870004000 minor groove reading motif; other site 416870004001 helix-hairpin-helix signature motif; other site 416870004002 substrate binding pocket [chemical binding]; other site 416870004003 active site 416870004004 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 416870004005 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 416870004006 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 416870004007 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 416870004008 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 416870004009 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 416870004010 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 416870004011 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 416870004012 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 416870004013 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 416870004014 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 416870004015 active site 416870004016 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 416870004017 Helix-turn-helix domains; Region: HTH; cl00088 416870004018 Helix-turn-helix domains; Region: HTH; cl00088 416870004019 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 416870004020 Sel1 repeat; Region: Sel1; cl02723 416870004021 Sel1 repeat; Region: Sel1; cl02723 416870004022 dihydroorotase; Validated; Region: pyrC; PRK09357 416870004023 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 416870004024 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 416870004025 active site 416870004026 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 416870004027 active site 416870004028 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 416870004029 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 416870004030 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 416870004031 ABC transporter; Region: ABC_tran_2; pfam12848 416870004032 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 416870004033 Arsenate Reductase (ArsC) family, Spx subfamily; Spx is a unique RNA polymerase (RNAP)-binding protein present in bacilli and some mollicutes. It inhibits transcription by binding to the C-terminal domain of the alpha subunit of RNAP, disrupting complex...; Region: ArsC_Spx; cd03032 416870004034 ArsC family; Region: ArsC; pfam03960 416870004035 putative catalytic residues [active] 416870004036 thiol/disulfide switch; other site 416870004037 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 416870004038 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 416870004039 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870004040 hypothetical protein; Reviewed; Region: PRK00024 416870004041 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 416870004042 MPN+ (JAMM) motif; other site 416870004043 Zinc-binding site [ion binding]; other site 416870004044 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 416870004045 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 416870004046 glutaminase active site [active] 416870004047 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 416870004048 dimer interface [polypeptide binding]; other site 416870004049 active site 416870004050 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 416870004051 dimer interface [polypeptide binding]; other site 416870004052 active site 416870004053 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 416870004054 active site 416870004055 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 416870004056 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 416870004057 dimer interface [polypeptide binding]; other site 416870004058 phosphorylation site [posttranslational modification] 416870004059 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 416870004060 ATP binding site [chemical binding]; other site 416870004061 Mg2+ binding site [ion binding]; other site 416870004062 G-X-G motif; other site 416870004063 Predicted membrane protein (DUF2127); Region: DUF2127; cl01785 416870004064 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 416870004065 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 416870004066 active site 416870004067 phosphorylation site [posttranslational modification] 416870004068 intermolecular recognition site; other site 416870004069 dimerization interface [polypeptide binding]; other site 416870004070 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 416870004071 DNA binding site [nucleotide binding] 416870004072 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 416870004073 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 416870004074 Ligand binding site; other site 416870004075 Putative Catalytic site; other site 416870004076 DXD motif; other site 416870004077 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 416870004078 Divergent PAP2 family; Region: DUF212; cl00855 416870004079 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 416870004080 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 416870004081 RNA binding surface [nucleotide binding]; other site 416870004082 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 416870004083 active site 416870004084 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 416870004085 Predicted transcriptional regulator [Transcription]; Region: COG2378 416870004086 Helix-turn-helix domains; Region: HTH; cl00088 416870004087 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 416870004088 homopentamer interface [polypeptide binding]; other site 416870004089 active site 416870004090 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 416870004091 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 416870004092 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 416870004093 dimerization interface [polypeptide binding]; other site 416870004094 active site 416870004095 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 416870004096 Lumazine binding domain; Region: Lum_binding; pfam00677 416870004097 Lumazine binding domain; Region: Lum_binding; pfam00677 416870004098 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 416870004099 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 416870004100 catalytic motif [active] 416870004101 Zn binding site [ion binding]; other site 416870004102 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 416870004103 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 416870004104 DNA topoisomerase IV, A subunit, Gram-positive; Region: parC_Gpos; TIGR01061 416870004105 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 416870004106 CAP-like domain; other site 416870004107 active site 416870004108 primary dimer interface [polypeptide binding]; other site 416870004109 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 416870004110 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 416870004111 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416870004112 Coenzyme A binding pocket [chemical binding]; other site 416870004113 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 416870004114 active site 416870004115 substrate binding site [chemical binding]; other site 416870004116 catalytic site [active] 416870004117 Isochorismatase family; Region: Isochorismatase; pfam00857 416870004118 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 416870004119 catalytic triad [active] 416870004120 conserved cis-peptide bond; other site 416870004121 DNA topoisomerase IV, B subunit, Gram-positive; Region: parE_Gpos; TIGR01058 416870004122 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 416870004123 Mg2+ binding site [ion binding]; other site 416870004124 G-X-G motif; other site 416870004125 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 416870004126 anchoring element; other site 416870004127 dimer interface [polypeptide binding]; other site 416870004128 ATP binding site [chemical binding]; other site 416870004129 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 416870004130 active site 416870004131 putative metal-binding site [ion binding]; other site 416870004132 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 416870004133 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 416870004134 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 416870004135 catalytic residues [active] 416870004136 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 416870004137 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07306 416870004138 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 416870004139 Class I ribonucleotide reductase; Region: RNR_I; cd01679 416870004140 active site 416870004141 dimer interface [polypeptide binding]; other site 416870004142 catalytic residues [active] 416870004143 effector binding site; other site 416870004144 R2 peptide binding site; other site 416870004145 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 416870004146 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 416870004147 dimer interface [polypeptide binding]; other site 416870004148 putative radical transfer pathway; other site 416870004149 diiron center [ion binding]; other site 416870004150 tyrosyl radical; other site 416870004151 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 416870004152 FtsX-like permease family; Region: FtsX; cl15850 416870004153 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 416870004154 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 416870004155 Walker A/P-loop; other site 416870004156 ATP binding site [chemical binding]; other site 416870004157 Q-loop/lid; other site 416870004158 ABC transporter signature motif; other site 416870004159 Walker B; other site 416870004160 D-loop; other site 416870004161 H-loop/switch region; other site 416870004162 peptide chain release factor 2; Validated; Region: prfB; PRK00578 416870004163 RF-1 domain; Region: RF-1; cl02875 416870004164 RF-1 domain; Region: RF-1; cl02875 416870004165 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 416870004166 Protein of unknown function (DUF402); Region: DUF402; cl00979 416870004167 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 416870004168 ABC-2 type transporter; Region: ABC2_membrane; cl11417 416870004169 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 416870004170 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 416870004171 Walker A/P-loop; other site 416870004172 ATP binding site [chemical binding]; other site 416870004173 Q-loop/lid; other site 416870004174 ABC transporter signature motif; other site 416870004175 Walker B; other site 416870004176 D-loop; other site 416870004177 H-loop/switch region; other site 416870004178 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 416870004179 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 416870004180 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 416870004181 Family of CofD-like proteins and proteins related to YvcK; Region: CofD_YvcK; cd07044 416870004182 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 416870004183 dimer interface [polypeptide binding]; other site 416870004184 phosphate binding site [ion binding]; other site 416870004185 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 416870004186 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 416870004187 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 416870004188 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 416870004189 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 416870004190 putative active site [active] 416870004191 catalytic site [active] 416870004192 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 416870004193 putative active site [active] 416870004194 catalytic site [active] 416870004195 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 416870004196 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 416870004197 ligand binding site [chemical binding]; other site 416870004198 flexible hinge region; other site 416870004199 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 416870004200 putative switch regulator; other site 416870004201 non-specific DNA interactions [nucleotide binding]; other site 416870004202 DNA binding site [nucleotide binding] 416870004203 sequence specific DNA binding site [nucleotide binding]; other site 416870004204 putative cAMP binding site [chemical binding]; other site 416870004205 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 416870004206 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 416870004207 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 416870004208 Protein of unknown function (DUF805); Region: DUF805; cl01224 416870004209 Helix-turn-helix domains; Region: HTH; cl00088 416870004210 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 416870004211 HTH-like domain; Region: HTH_21; pfam13276 416870004212 Integrase core domain; Region: rve; cl01316 416870004213 Integrase core domain; Region: rve_3; cl15866 416870004214 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416870004215 Helix-turn-helix domains; Region: HTH; cl00088 416870004216 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416870004217 Helix-turn-helix domains; Region: HTH; cl00088 416870004218 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 416870004219 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 416870004220 active site 416870004221 phosphorylation site [posttranslational modification] 416870004222 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 416870004223 P-loop; other site 416870004224 active site 416870004225 phosphorylation site [posttranslational modification] 416870004226 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 416870004227 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 416870004228 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 416870004229 putative substrate binding site [chemical binding]; other site 416870004230 putative ATP binding site [chemical binding]; other site 416870004231 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 416870004232 Helix-turn-helix domains; Region: HTH; cl00088 416870004233 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 416870004234 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 416870004235 M20 Peptidase Aminoacyclase-1 YxeP-like proteins, including YxeP, YtnL, YjiB and HipO2; Region: M20_Acy1_YxeP_like; cd05669 416870004236 metal binding site [ion binding]; metal-binding site 416870004237 dimer interface [polypeptide binding]; other site 416870004238 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870004239 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 416870004240 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 416870004241 dimer interface [polypeptide binding]; other site 416870004242 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 416870004243 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 416870004244 Helix-turn-helix domains; Region: HTH; cl00088 416870004245 HrcA protein C terminal domain; Region: HrcA; pfam01628 416870004246 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 416870004247 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 416870004248 catalytic core [active] 416870004249 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 416870004250 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 416870004251 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 416870004252 UbiA prenyltransferase family; Region: UbiA; cl00337 416870004253 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 416870004254 putative catalytic site [active] 416870004255 putative metal binding site [ion binding]; other site 416870004256 putative phosphate binding site [ion binding]; other site 416870004257 Isochorismatase family; Region: Isochorismatase; pfam00857 416870004258 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 416870004259 catalytic triad [active] 416870004260 conserved cis-peptide bond; other site 416870004261 ribonuclease R; Region: RNase_R; TIGR02063 416870004262 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 416870004263 RNB domain; Region: RNB; pfam00773 416870004264 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an important...; Region: S1_RNase_R; cd04471 416870004265 RNA binding site [nucleotide binding]; other site 416870004266 Preprotein translocase SecG subunit; Region: SecG; cl09123 416870004267 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 416870004268 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870004269 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 416870004270 Protein of unknown function (DUF4059); Region: DUF4059; pfam13268 416870004271 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 416870004272 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 416870004273 Walker A/P-loop; other site 416870004274 ATP binding site [chemical binding]; other site 416870004275 Q-loop/lid; other site 416870004276 ABC transporter signature motif; other site 416870004277 Walker B; other site 416870004278 D-loop; other site 416870004279 H-loop/switch region; other site 416870004280 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 416870004281 dimer interface [polypeptide binding]; other site 416870004282 conserved gate region; other site 416870004283 putative PBP binding loops; other site 416870004284 ABC-ATPase subunit interface; other site 416870004285 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 416870004286 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 416870004287 substrate binding pocket [chemical binding]; other site 416870004288 membrane-bound complex binding site; other site 416870004289 hinge residues; other site 416870004290 NlpC/P60 family; Region: NLPC_P60; cl11438 416870004291 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 416870004292 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 416870004293 Potassium binding sites [ion binding]; other site 416870004294 Cesium cation binding sites [ion binding]; other site 416870004295 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 416870004296 ASC-1 homology domain, subfamily similar to Enterococcus faecalis Ef3133. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to...; Region: ASCH_Ef3133_like; cd06553 416870004297 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 416870004298 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 416870004299 Putative zinc ribbon domain; Region: Zn_ribbon_2; pfam12674 416870004300 Sulfatase; Region: Sulfatase; cl10460 416870004301 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 416870004302 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 416870004303 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 416870004304 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 416870004305 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 416870004306 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 416870004307 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 416870004308 active site 416870004309 nucleotide binding site [chemical binding]; other site 416870004310 HIGH motif; other site 416870004311 KMSKS motif; other site 416870004312 Glycosyl hydrolase family 43; Region: GH43_ABN_2; cd08999 416870004313 putative substrate binding site [chemical binding]; other site 416870004314 active site 416870004315 SGNH_hydrolase subfamily, similar to the putative arylesterase/acylhydrolase from the rumen anaerobe Prevotella bryantii XynE. The P. bryantii XynE gene is located in a xylanase gene cluster. SGNH hydrolases are a diverse family of lipases and esterases; Region: XynE_like; cd01830 416870004316 active site 416870004317 catalytic triad [active] 416870004318 oxyanion hole [active] 416870004319 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 416870004320 Integrase core domain; Region: rve; cl01316 416870004321 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 416870004322 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 416870004323 Walker A motif; other site 416870004324 ATP binding site [chemical binding]; other site 416870004325 Walker B motif; other site 416870004326 arginine finger; other site 416870004327 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 416870004328 trimer interface [polypeptide binding]; other site 416870004329 CoA binding site [chemical binding]; other site 416870004330 active site 416870004331 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 416870004332 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870004333 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 416870004334 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870004335 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 416870004336 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 416870004337 active site 416870004338 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 416870004339 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 416870004340 active site 416870004341 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 416870004342 active site 416870004343 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 416870004344 active site 416870004345 ABC-2 type transporter; Region: ABC2_membrane; cl11417 416870004346 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 416870004347 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 416870004348 Walker A/P-loop; other site 416870004349 ATP binding site [chemical binding]; other site 416870004350 Q-loop/lid; other site 416870004351 ABC transporter signature motif; other site 416870004352 Walker B; other site 416870004353 D-loop; other site 416870004354 H-loop/switch region; other site 416870004355 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 416870004356 putative peptidoglycan binding site; other site 416870004357 Exopolysaccharide biosynthesis protein related to N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: EpsL; COG4632 416870004358 Helix-turn-helix domains; Region: HTH; cl00088 416870004359 Helix-turn-helix domains; Region: HTH; cl00088 416870004360 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 416870004361 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 416870004362 S-adenosylmethionine binding site [chemical binding]; other site 416870004363 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 416870004364 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 416870004365 Mg2+ binding site [ion binding]; other site 416870004366 G-X-G motif; other site 416870004367 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 416870004368 anchoring element; other site 416870004369 dimer interface [polypeptide binding]; other site 416870004370 ATP binding site [chemical binding]; other site 416870004371 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 416870004372 active site 416870004373 putative metal-binding site [ion binding]; other site 416870004374 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 416870004375 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 416870004376 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 416870004377 motif II; other site 416870004378 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 416870004379 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_12; cd07255 416870004380 putative metal binding site [ion binding]; other site 416870004381 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 416870004382 active site 416870004383 metal binding site [ion binding]; metal-binding site 416870004384 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 416870004385 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 416870004386 Walker A/P-loop; other site 416870004387 ATP binding site [chemical binding]; other site 416870004388 Q-loop/lid; other site 416870004389 ABC transporter signature motif; other site 416870004390 Walker B; other site 416870004391 D-loop; other site 416870004392 H-loop/switch region; other site 416870004393 EamA-like transporter family; Region: EamA; cl01037 416870004394 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 416870004395 2-hydroxycarboxylate transporter family; Region: 2HCT; cl01386 416870004396 malate dehydrogenase; Provisional; Region: PRK13529 416870004397 Malic enzyme, N-terminal domain; Region: malic; pfam00390 416870004398 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 416870004399 NAD(P) binding site [chemical binding]; other site 416870004400 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 416870004401 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 416870004402 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 416870004403 ABC transporter; Region: ABC_tran_2; pfam12848 416870004404 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 416870004405 acetoin reductase; Validated; Region: PRK08643 416870004406 meso-2,3-butanediol dehydrogenase-like, classical (c) SDRs; Region: meso-BDH-like_SDR_c; cd05366 416870004407 NAD binding site [chemical binding]; other site 416870004408 homotetramer interface [polypeptide binding]; other site 416870004409 homodimer interface [polypeptide binding]; other site 416870004410 active site 416870004411 substrate binding site [chemical binding]; other site 416870004412 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 416870004413 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 416870004414 putative NAD(P) binding site [chemical binding]; other site 416870004415 catalytic Zn binding site [ion binding]; other site 416870004416 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 416870004417 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 416870004418 Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]; Region: VacB; COG1098 416870004419 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 416870004420 RNA binding site [nucleotide binding]; other site 416870004421 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 416870004422 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 416870004423 active site 416870004424 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 416870004425 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 416870004426 motif II; other site 416870004427 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 416870004428 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 416870004429 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 416870004430 active site 416870004431 phosphorylation site [posttranslational modification] 416870004432 intermolecular recognition site; other site 416870004433 dimerization interface [polypeptide binding]; other site 416870004434 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 416870004435 DNA binding residues [nucleotide binding] 416870004436 dimerization interface [polypeptide binding]; other site 416870004437 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 416870004438 Histidine kinase; Region: HisKA_3; pfam07730 416870004439 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 416870004440 ATP binding site [chemical binding]; other site 416870004441 Mg2+ binding site [ion binding]; other site 416870004442 G-X-G motif; other site 416870004443 Predicted membrane protein [Function unknown]; Region: COG4758 416870004444 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 416870004445 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_12; cd07255 416870004446 putative metal binding site [ion binding]; other site 416870004447 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 416870004448 NlpC/P60 family; Region: NLPC_P60; cl11438 416870004449 putative transposase OrfB; Reviewed; Region: PHA02517 416870004450 HTH-like domain; Region: HTH_21; pfam13276 416870004451 Integrase core domain; Region: rve; cl01316 416870004452 Integrase core domain; Region: rve_3; cl15866 416870004453 Helix-turn-helix domains; Region: HTH; cl00088 416870004454 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 416870004455 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 416870004456 DNA binding site [nucleotide binding] 416870004457 Int/Topo IB signature motif; other site 416870004458 active site 416870004459 Domain of unknown function DUF59; Region: DUF59; cl00941 416870004460 Predicted membrane protein [Function unknown]; Region: COG1511 416870004461 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 416870004462 ABC-2 type transporter; Region: ABC2_membrane; cl11417 416870004463 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 416870004464 Helix-turn-helix domains; Region: HTH; cl00088 416870004465 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 416870004466 IHF - DNA interface [nucleotide binding]; other site 416870004467 IHF dimer interface [polypeptide binding]; other site 416870004468 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 416870004469 Ligand Binding Site [chemical binding]; other site 416870004470 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 416870004471 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 416870004472 N-glycosyltransferase; Provisional; Region: PRK11204 416870004473 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 416870004474 DXD motif; other site 416870004475 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416870004476 Coenzyme A binding pocket [chemical binding]; other site 416870004477 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 416870004478 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 416870004479 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 416870004480 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 416870004481 synthetase active site [active] 416870004482 NTP binding site [chemical binding]; other site 416870004483 metal binding site [ion binding]; metal-binding site 416870004484 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416870004485 Helix-turn-helix domains; Region: HTH; cl00088 416870004486 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 416870004487 dimerization interface [polypeptide binding]; other site 416870004488 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 416870004489 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 416870004490 Walker A/P-loop; other site 416870004491 ATP binding site [chemical binding]; other site 416870004492 Q-loop/lid; other site 416870004493 ABC transporter signature motif; other site 416870004494 Walker B; other site 416870004495 D-loop; other site 416870004496 H-loop/switch region; other site 416870004497 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 416870004498 phospho-N-acetylmuramoyl-pentapeptide-transferase; Region: mraY; TIGR00445 416870004499 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 416870004500 Mg++ binding site [ion binding]; other site 416870004501 putative catalytic motif [active] 416870004502 putative substrate binding site [chemical binding]; other site 416870004503 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 416870004504 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 416870004505 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 416870004506 PASTA domain of PBP2x-like proteins, first repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_1; cd06576 416870004507 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 416870004508 Septum formation initiator; Region: DivIC; cl11433 416870004509 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 416870004510 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870004511 Protein of unknown function (DUF805); Region: DUF805; cl01224 416870004512 Protein of unknown function (DUF805); Region: DUF805; cl01224 416870004513 Protein of unknown function (DUF805); Region: DUF805; cl01224 416870004514 Protein of unknown function (DUF1211); Region: DUF1211; cl01421 416870004515 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 416870004516 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 416870004517 Walker A/P-loop; other site 416870004518 ATP binding site [chemical binding]; other site 416870004519 Q-loop/lid; other site 416870004520 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 416870004521 ABC transporter signature motif; other site 416870004522 Walker B; other site 416870004523 D-loop; other site 416870004524 H-loop/switch region; other site 416870004525 Arginine repressor [Transcription]; Region: ArgR; COG1438 416870004526 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 416870004527 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 416870004528 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 416870004529 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 416870004530 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 416870004531 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 416870004532 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 416870004533 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 416870004534 substrate binding pocket [chemical binding]; other site 416870004535 chain length determination region; other site 416870004536 substrate-Mg2+ binding site; other site 416870004537 catalytic residues [active] 416870004538 aspartate-rich region 1; other site 416870004539 active site lid residues [active] 416870004540 aspartate-rich region 2; other site 416870004541 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 416870004542 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 416870004543 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 416870004544 generic binding surface II; other site 416870004545 generic binding surface I; other site 416870004546 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14179 416870004547 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 416870004548 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 416870004549 homodimer interface [polypeptide binding]; other site 416870004550 NADP binding site [chemical binding]; other site 416870004551 substrate binding site [chemical binding]; other site 416870004552 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 416870004553 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 416870004554 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 416870004555 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 416870004556 ABC-ATPase subunit interface; other site 416870004557 NMT1-like family; Region: NMT1_2; cl15260 416870004558 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 416870004559 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 416870004560 OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment. ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of...; Region: ABC_OpuCA_Osmoprotection; cd03295 416870004561 Walker A/P-loop; other site 416870004562 ATP binding site [chemical binding]; other site 416870004563 Q-loop/lid; other site 416870004564 ABC transporter signature motif; other site 416870004565 Walker B; other site 416870004566 D-loop; other site 416870004567 H-loop/switch region; other site 416870004568 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 416870004569 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 416870004570 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 416870004571 Arsenate Reductase (ArsC) family, Spx subfamily; Spx is a unique RNA polymerase (RNAP)-binding protein present in bacilli and some mollicutes. It inhibits transcription by binding to the C-terminal domain of the alpha subunit of RNAP, disrupting complex...; Region: ArsC_Spx; cd03032 416870004572 ArsC family; Region: ArsC; pfam03960 416870004573 putative catalytic residues [active] 416870004574 thiol/disulfide switch; other site 416870004575 alanine racemase; Reviewed; Region: alr; PRK00053 416870004576 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 416870004577 active site 416870004578 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 416870004579 dimer interface [polypeptide binding]; other site 416870004580 substrate binding site [chemical binding]; other site 416870004581 catalytic residues [active] 416870004582 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 416870004583 dipeptidase PepV; Region: dipeptidase; TIGR01886 416870004584 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 416870004585 active site 416870004586 metal binding site [ion binding]; metal-binding site 416870004587 Domain of unknown function (DUF1792); Region: DUF1792; cl07392 416870004588 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 416870004589 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 416870004590 Ligand binding site; other site 416870004591 metal-binding site 416870004592 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 416870004593 trimer interface [polypeptide binding]; other site 416870004594 active site 416870004595 substrate binding site [chemical binding]; other site 416870004596 CoA binding site [chemical binding]; other site 416870004597 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 416870004598 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 416870004599 active site 416870004600 putative transposase OrfB; Reviewed; Region: PHA02517 416870004601 HTH-like domain; Region: HTH_21; pfam13276 416870004602 Integrase core domain; Region: rve; cl01316 416870004603 Integrase core domain; Region: rve_3; cl15866 416870004604 Helix-turn-helix domains; Region: HTH; cl00088 416870004605 Helix-turn-helix domains; Region: HTH; cl00088 416870004606 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 416870004607 HTH-like domain; Region: HTH_21; pfam13276 416870004608 Integrase core domain; Region: rve; cl01316 416870004609 Integrase core domain; Region: rve_3; cl15866 416870004610 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 416870004611 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 416870004612 minor groove reading motif; other site 416870004613 helix-hairpin-helix signature motif; other site 416870004614 substrate binding pocket [chemical binding]; other site 416870004615 active site 416870004616 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 416870004617 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 416870004618 DNA binding and oxoG recognition site [nucleotide binding] 416870004619 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 416870004620 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 416870004621 GIY-YIG motif/motif A; other site 416870004622 active site 416870004623 catalytic site [active] 416870004624 putative DNA binding site [nucleotide binding]; other site 416870004625 metal binding site [ion binding]; metal-binding site 416870004626 UvrB/uvrC motif; Region: UVR; pfam02151 416870004627 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 416870004628 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 416870004629 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 416870004630 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 416870004631 Fibronectin-binding repeat; Region: SSURE; pfam11966 416870004632 Fibronectin-binding repeat; Region: SSURE; pfam11966 416870004633 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 416870004634 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 416870004635 RNA binding site [nucleotide binding]; other site 416870004636 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 416870004637 RNA binding site [nucleotide binding]; other site 416870004638 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec3; cd05688 416870004639 RNA binding site [nucleotide binding]; other site 416870004640 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 416870004641 RNA binding site [nucleotide binding]; other site 416870004642 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 416870004643 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 416870004644 Galactose-1-phosphate uridylyltransferase [Energy production and conversion]; Region: GalT; COG1085 416870004645 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 416870004646 nucleotide binding site/active site [active] 416870004647 HIT family signature motif; other site 416870004648 catalytic residue [active] 416870004649 Predicted membrane protein [Function unknown]; Region: COG4485 416870004650 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 416870004651 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 416870004652 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 416870004653 metal-binding site [ion binding] 416870004654 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 416870004655 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 416870004656 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 416870004657 metal-binding site [ion binding] 416870004658 Helix-turn-helix domains; Region: HTH; cl00088 416870004659 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 416870004660 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 416870004661 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 416870004662 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 416870004663 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 416870004664 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 416870004665 putative L-serine binding site [chemical binding]; other site 416870004666 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 416870004667 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 416870004668 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 416870004669 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870004670 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 416870004671 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 416870004672 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 416870004673 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 416870004674 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 416870004675 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 416870004676 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 416870004677 putative active site [active] 416870004678 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 416870004679 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 416870004680 HIGH motif; other site 416870004681 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 416870004682 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 416870004683 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 416870004684 active site 416870004685 KMSKS motif; other site 416870004686 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 416870004687 tRNA binding surface [nucleotide binding]; other site 416870004688 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 416870004689 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 416870004690 Helix-turn-helix domains; Region: HTH; cl00088 416870004691 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02269 416870004692 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 416870004693 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 416870004694 active site 416870004695 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 416870004696 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 416870004697 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 416870004698 P loop; other site 416870004699 GTP binding site [chemical binding]; other site 416870004700 Protein of unknown function (DUF3159); Region: DUF3159; pfam11361 416870004701 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 416870004702 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 416870004703 active site 416870004704 motif I; other site 416870004705 motif II; other site 416870004706 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 416870004707 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 416870004708 YibE/F-like protein; Region: YibE_F; cl02259 416870004709 YibE/F-like protein; Region: YibE_F; cl02259 416870004710 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 416870004711 Sulfatase; Region: Sulfatase; cl10460 416870004712 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 416870004713 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 416870004714 Walker A/P-loop; other site 416870004715 ATP binding site [chemical binding]; other site 416870004716 Q-loop/lid; other site 416870004717 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 416870004718 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 416870004719 Q-loop/lid; other site 416870004720 ABC transporter signature motif; other site 416870004721 Walker B; other site 416870004722 D-loop; other site 416870004723 H-loop/switch region; other site 416870004724 ribonuclease III; Reviewed; Region: rnc; PRK00102 416870004725 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 416870004726 dimerization interface [polypeptide binding]; other site 416870004727 active site 416870004728 metal binding site [ion binding]; metal-binding site 416870004729 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 416870004730 dsRNA binding site [nucleotide binding]; other site 416870004731 ornithine carbamoyltransferase; Validated; Region: PRK02102 416870004732 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 416870004733 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870004734 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 416870004735 feedback inhibition sensing region; other site 416870004736 homohexameric interface [polypeptide binding]; other site 416870004737 nucleotide binding site [chemical binding]; other site 416870004738 N-acetyl-L-glutamate binding site [chemical binding]; other site 416870004739 acetylornithine aminotransferase; Provisional; Region: argD; PRK02936 416870004740 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 416870004741 inhibitor-cofactor binding pocket; inhibition site 416870004742 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416870004743 catalytic residue [active] 416870004744 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 416870004745 heterotetramer interface [polypeptide binding]; other site 416870004746 active site pocket [active] 416870004747 cleavage site 416870004748 N-acetyl-gamma-glutamyl-phosphate reductase, common form; Region: argC; TIGR01850 416870004749 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870004750 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 416870004751 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 416870004752 NADH(P)-binding; Region: NAD_binding_10; pfam13460 416870004753 NAD binding site [chemical binding]; other site 416870004754 substrate binding site [chemical binding]; other site 416870004755 putative active site [active] 416870004756 QueT transporter; Region: QueT; cl01932 416870004757 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 416870004758 classical (c) SDRs; Region: SDR_c; cd05233 416870004759 NAD(P) binding site [chemical binding]; other site 416870004760 active site 416870004761 Protein of unknown function (DUF2829); Region: DUF2829; pfam11195 416870004762 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 416870004763 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 416870004764 active site 416870004765 HIGH motif; other site 416870004766 KMSKS motif; other site 416870004767 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 416870004768 tRNA binding surface [nucleotide binding]; other site 416870004769 anticodon binding site; other site 416870004770 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 416870004771 dimer interface [polypeptide binding]; other site 416870004772 putative tRNA-binding site [nucleotide binding]; other site 416870004773 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 416870004774 active site 416870004775 DNA binding site [nucleotide binding] 416870004776 putative phosphate binding site [ion binding]; other site 416870004777 putative catalytic site [active] 416870004778 metal binding site A [ion binding]; metal-binding site 416870004779 AP binding site [nucleotide binding]; other site 416870004780 metal binding site B [ion binding]; metal-binding site 416870004781 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 416870004782 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 416870004783 active site 416870004784 Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC. Proteins containing a redox active CXXC motif like TRX and glutaredoxin (GRX)...; Region: ArsC_like; cd03036 416870004785 ArsC family; Region: ArsC; pfam03960 416870004786 putative ArsC-like catalytic residues; other site 416870004787 putative TRX-like catalytic residues [active] 416870004788 Uncharacterized protein YrkD from Bacillus subtilis and related domains; this domain superfamily was previously known as part of DUF156; Region: BsYrkD-like_DUF156; cd10155 416870004789 putative homotetramer interface [polypeptide binding]; other site 416870004790 putative homodimer interface [polypeptide binding]; other site 416870004791 putative metal binding site [ion binding]; other site 416870004792 putative homodimer-homodimer interface [polypeptide binding]; other site 416870004793 putative allosteric switch controlling residues; other site 416870004794 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 416870004795 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 416870004796 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 416870004797 Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar...; Region: RHOD_Pyr_redox; cd01524 416870004798 active site residue [active] 416870004799 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 416870004800 active site residue [active] 416870004801 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 416870004802 active site residue [active] 416870004803 CsbD-like; Region: CsbD; cl15799 416870004804 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 416870004805 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 416870004806 dimer interface [polypeptide binding]; other site 416870004807 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416870004808 catalytic residue [active] 416870004809 cystathionine gamma-synthase/cystathionine beta-lyase; Validated; Region: PRK06176 416870004810 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 416870004811 homodimer interface [polypeptide binding]; other site 416870004812 substrate-cofactor binding pocket; other site 416870004813 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416870004814 catalytic residue [active] 416870004815 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 416870004816 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 416870004817 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 416870004818 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 416870004819 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 416870004820 ATP-grasp domain; Region: ATP-grasp_4; cl03087 416870004821 ATP-grasp domain; Region: ATP-grasp_4; cl03087 416870004822 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 416870004823 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 416870004824 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 416870004825 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 416870004826 carboxyltransferase (CT) interaction site; other site 416870004827 biotinylation site [posttranslational modification]; other site 416870004828 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 416870004829 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 416870004830 dimer interface [polypeptide binding]; other site 416870004831 active site 416870004832 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 416870004833 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 416870004834 NAD(P) binding site [chemical binding]; other site 416870004835 homotetramer interface [polypeptide binding]; other site 416870004836 homodimer interface [polypeptide binding]; other site 416870004837 active site 416870004838 Acyl transferase domain; Region: Acyl_transf_1; cl08282 416870004839 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 416870004840 Phosphopantetheine attachment site; Region: PP-binding; cl09936 416870004841 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 416870004842 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 416870004843 dimer interface [polypeptide binding]; other site 416870004844 active site 416870004845 CoA binding pocket [chemical binding]; other site 416870004846 Helix-turn-helix domains; Region: HTH; cl00088 416870004847 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 416870004848 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 416870004849 Ribosome-binding factor A; Region: RBFA; cl00542 416870004850 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 416870004851 translation initiation factor IF-2; Region: IF-2; TIGR00487 416870004852 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 416870004853 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 416870004854 G1 box; other site 416870004855 putative GEF interaction site [polypeptide binding]; other site 416870004856 GTP/Mg2+ binding site [chemical binding]; other site 416870004857 Switch I region; other site 416870004858 G2 box; other site 416870004859 G3 box; other site 416870004860 Switch II region; other site 416870004861 G4 box; other site 416870004862 G5 box; other site 416870004863 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 416870004864 Translation-initiation factor 2; Region: IF-2; pfam11987 416870004865 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 416870004866 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 416870004867 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; cd00279 416870004868 putative RNA binding cleft [nucleotide binding]; other site 416870004869 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 416870004870 NusA N-terminal domain; Region: NusA_N; pfam08529 416870004871 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 416870004872 RNA binding site [nucleotide binding]; other site 416870004873 homodimer interface [polypeptide binding]; other site 416870004874 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 416870004875 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 416870004876 G-X-X-G motif; other site 416870004877 Uncharacterized BCR, YhbC family COG0779; Region: DUF150; pfam02576 416870004878 YxlS is a Bacillus subtilis gene of unknown function with two domains that each have an alpha/beta fold. The N-terminal domain is composed of two alpha-helices and a three-stranded beta-sheet, while the C-terminal domain is composed of one alpha-helix...; Region: YlxS_C; cd01734 416870004879 Sm1 motif; other site 416870004880 predicted subunit interaction site [polypeptide binding]; other site 416870004881 RNA binding pocket [nucleotide binding]; other site 416870004882 Sm2 motif; other site 416870004883 LrgA family; Region: LrgA; cl00608 416870004884 LrgB-like family; Region: LrgB; cl00596 416870004885 Sortase C (SrtC) or subfamily-3 sortases are membrane cysteine transpeptidases found in Gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_C_3; cd05827 416870004886 active site 416870004887 catalytic site [active] 416870004888 Protein of unknown function (DUF3990); Region: DUF3990; pfam13151 416870004889 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 416870004890 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 416870004891 non-specific DNA binding site [nucleotide binding]; other site 416870004892 salt bridge; other site 416870004893 sequence-specific DNA binding site [nucleotide binding]; other site 416870004894 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 416870004895 GTP-binding protein Der; Reviewed; Region: PRK00093 416870004896 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 416870004897 G1 box; other site 416870004898 GTP/Mg2+ binding site [chemical binding]; other site 416870004899 Switch I region; other site 416870004900 G2 box; other site 416870004901 Switch II region; other site 416870004902 G3 box; other site 416870004903 G4 box; other site 416870004904 G5 box; other site 416870004905 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 416870004906 G1 box; other site 416870004907 GTP/Mg2+ binding site [chemical binding]; other site 416870004908 Switch I region; other site 416870004909 G2 box; other site 416870004910 G3 box; other site 416870004911 Switch II region; other site 416870004912 G4 box; other site 416870004913 G5 box; other site 416870004914 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 416870004915 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 416870004916 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 416870004917 dimer interface [polypeptide binding]; other site 416870004918 FMN binding site [chemical binding]; other site 416870004919 NADPH bind site [chemical binding]; other site 416870004920 primosomal protein DnaI; Reviewed; Region: PRK08939 416870004921 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 416870004922 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 416870004923 Walker A motif; other site 416870004924 ATP binding site [chemical binding]; other site 416870004925 Walker B motif; other site 416870004926 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 416870004927 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 416870004928 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 416870004929 Transcription factor S-II (TFIIS); Region: TFIIS_C; cl02609 416870004930 ATP cone domain; Region: ATP-cone; pfam03477 416870004931 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 416870004932 S-adenosylmethionine binding site [chemical binding]; other site 416870004933 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cd05120 416870004934 Phosphotransferase enzyme family; Region: APH; pfam01636 416870004935 active site 416870004936 substrate binding site [chemical binding]; other site 416870004937 ATP binding site [chemical binding]; other site 416870004938 Protein of unknown function (DUF1021); Region: DUF1021; cl01852 416870004939 replicative DNA helicase; Provisional; Region: PRK05748 416870004940 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 416870004941 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 416870004942 Walker A motif; other site 416870004943 ATP binding site [chemical binding]; other site 416870004944 Walker B motif; other site 416870004945 DNA binding loops [nucleotide binding] 416870004946 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 416870004947 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 416870004948 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 416870004949 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 416870004950 DHH family; Region: DHH; pfam01368 416870004951 DHHA1 domain; Region: DHHA1; pfam02272 416870004952 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 416870004953 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 416870004954 motif II; other site 416870004955 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 416870004956 Helix-turn-helix domains; Region: HTH; cl00088 416870004957 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 416870004958 active site 416870004959 nucleophile elbow; other site 416870004960 aspartate kinase; Reviewed; Region: PRK09034 416870004961 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 416870004962 nucleotide binding site [chemical binding]; other site 416870004963 substrate binding site [chemical binding]; other site 416870004964 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_1; cd04911 416870004965 allosteric regulatory residue; other site 416870004966 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_2; cd04916 416870004967 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 416870004968 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 416870004969 active site 416870004970 motif I; other site 416870004971 motif II; other site 416870004972 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 416870004973 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 416870004974 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 416870004975 active site 416870004976 homotetramer interface [polypeptide binding]; other site 416870004977 homodimer interface [polypeptide binding]; other site 416870004978 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 416870004979 DHH family; Region: DHH; pfam01368 416870004980 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 416870004981 DRTGG domain; Region: DRTGG; cl12147 416870004982 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with a DRTGG domain upstream. The function of the DRTGG domain, named after its conserved residues, is unknown. CBS is a small domain originally...; Region: CBS_pair_DRTGG_assoc; cd04596 416870004983 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 416870004984 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 416870004985 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 416870004986 chorismate binding enzyme; Region: Chorismate_bind; cl10555 416870004987 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase [Coenzyme metabolism]; Region: MenD; COG1165 416870004988 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 416870004989 dimer interface [polypeptide binding]; other site 416870004990 tetramer interface [polypeptide binding]; other site 416870004991 PYR/PP interface [polypeptide binding]; other site 416870004992 TPP binding site [chemical binding]; other site 416870004993 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 416870004994 TPP-binding site; other site 416870004995 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 416870004996 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 416870004997 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 416870004998 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 416870004999 substrate binding site [chemical binding]; other site 416870005000 oxyanion hole (OAH) forming residues; other site 416870005001 trimer interface [polypeptide binding]; other site 416870005002 AMP-binding enzyme; Region: AMP-binding; cl15778 416870005003 O-succinylbenzoate-CoA ligase; Region: menE; TIGR01923 416870005004 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 416870005005 N-acylamino acid racemase (NAAAR), an octameric enzyme that catalyzes the racemization of N-acylamino acids. NAAARs act on a broad range of N-acylamino acids rather than amino acids. Enantiopure amino acids are of industrial interest as chiral building...; Region: NAAAR; cd03317 416870005006 o-succinylbenzoate synthase; Region: menC_lowGC/arch; TIGR01928 416870005007 active site 416870005008 octamer interface [polypeptide binding]; other site 416870005009 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 416870005010 CoenzymeA binding site [chemical binding]; other site 416870005011 subunit interaction site [polypeptide binding]; other site 416870005012 PHB binding site; other site 416870005013 Transcriptional regulators [Transcription]; Region: PurR; COG1609 416870005014 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 416870005015 DNA binding site [nucleotide binding] 416870005016 domain linker motif; other site 416870005017 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 416870005018 dimerization interface [polypeptide binding]; other site 416870005019 ligand binding site [chemical binding]; other site 416870005020 This family represents an uncharacterized glycosyl hydrolase family 31 (GH31) enzyme found in bacteria and eukaryotes that is related to the XylS xylosidase of Sulfolobus solfataricus. Alpha-xylosidases catalyze the release of an alpha-xylose residue...; Region: GH31_xylosidase_XylS-like; cd06595 416870005021 putative active site [active] 416870005022 putative catalytic site [active] 416870005023 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 416870005024 Protein of unknown function, DUF624; Region: DUF624; cl02369 416870005025 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 416870005026 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 416870005027 dimer interface [polypeptide binding]; other site 416870005028 conserved gate region; other site 416870005029 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 416870005030 ABC-ATPase subunit interface; other site 416870005031 putative transposase OrfB; Reviewed; Region: PHA02517 416870005032 HTH-like domain; Region: HTH_21; pfam13276 416870005033 Integrase core domain; Region: rve; cl01316 416870005034 Integrase core domain; Region: rve_3; cl15866 416870005035 Helix-turn-helix domains; Region: HTH; cl00088 416870005036 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 416870005037 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 416870005038 nucleoside/Zn binding site; other site 416870005039 dimer interface [polypeptide binding]; other site 416870005040 catalytic motif [active] 416870005041 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 416870005042 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 416870005043 active site 416870005044 metal binding site [ion binding]; metal-binding site 416870005045 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 416870005046 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 416870005047 DNA-binding site [nucleotide binding]; DNA binding site 416870005048 RNA-binding motif; other site 416870005049 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 416870005050 DNA-binding site [nucleotide binding]; DNA binding site 416870005051 RNA-binding motif; other site 416870005052 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 416870005053 substrate binding site [chemical binding]; other site 416870005054 THF binding site; other site 416870005055 zinc-binding site [ion binding]; other site 416870005056 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 416870005057 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 416870005058 putative NAD(P) binding site [chemical binding]; other site 416870005059 dimer interface [polypeptide binding]; other site 416870005060 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 416870005061 Nucleic-acid-binding protein containing Zn-ribbon domain (DUF2082); Region: DUF2082; cl01381 416870005062 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 416870005063 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 416870005064 Walker A/P-loop; other site 416870005065 ATP binding site [chemical binding]; other site 416870005066 Q-loop/lid; other site 416870005067 ABC transporter signature motif; other site 416870005068 Walker B; other site 416870005069 D-loop; other site 416870005070 H-loop/switch region; other site 416870005071 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 416870005072 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 416870005073 FtsX-like permease family; Region: FtsX; cl15850 416870005074 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 416870005075 Protein of unknown function (DUF1211); Region: DUF1211; cl01421 416870005076 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 416870005077 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 416870005078 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 416870005079 Walker A/P-loop; other site 416870005080 ATP binding site [chemical binding]; other site 416870005081 Q-loop/lid; other site 416870005082 ABC transporter signature motif; other site 416870005083 Walker B; other site 416870005084 D-loop; other site 416870005085 H-loop/switch region; other site 416870005086 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 416870005087 catalytic triad [active] 416870005088 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 416870005089 Helix-turn-helix domains; Region: HTH; cl00088 416870005090 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 416870005091 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 416870005092 The CYD subfamily implicated in cytochrome bd biogenesis. The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd...; Region: ABCC_cytochrome_bd; cd03247 416870005093 Walker A/P-loop; other site 416870005094 ATP binding site [chemical binding]; other site 416870005095 Q-loop/lid; other site 416870005096 ABC transporter signature motif; other site 416870005097 Walker B; other site 416870005098 D-loop; other site 416870005099 H-loop/switch region; other site 416870005100 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 416870005101 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 416870005102 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 416870005103 Walker A/P-loop; other site 416870005104 ATP binding site [chemical binding]; other site 416870005105 Q-loop/lid; other site 416870005106 ABC transporter signature motif; other site 416870005107 Walker B; other site 416870005108 D-loop; other site 416870005109 H-loop/switch region; other site 416870005110 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 416870005111 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 416870005112 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 416870005113 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 416870005114 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 416870005115 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 416870005116 putative substrate translocation pore; other site 416870005117 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 416870005118 COMC family; Region: ComC; pfam03047 416870005119 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 416870005120 non-specific DNA binding site [nucleotide binding]; other site 416870005121 salt bridge; other site 416870005122 sequence-specific DNA binding site [nucleotide binding]; other site 416870005123 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 416870005124 active site 416870005125 homodimer interface [polypeptide binding]; other site 416870005126 catalytic site [active] 416870005127 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 416870005128 homodimer interface [polypeptide binding]; other site 416870005129 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 416870005130 active site pocket [active] 416870005131 glycogen synthase; Provisional; Region: glgA; PRK00654 416870005132 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 416870005133 ADP-binding pocket [chemical binding]; other site 416870005134 homodimer interface [polypeptide binding]; other site 416870005135 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 416870005136 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 416870005137 ligand binding site; other site 416870005138 oligomer interface; other site 416870005139 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 416870005140 dimer interface [polypeptide binding]; other site 416870005141 N-terminal domain interface [polypeptide binding]; other site 416870005142 sulfate 1 binding site; other site 416870005143 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 416870005144 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 416870005145 ligand binding site; other site 416870005146 oligomer interface; other site 416870005147 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 416870005148 dimer interface [polypeptide binding]; other site 416870005149 N-terminal domain interface [polypeptide binding]; other site 416870005150 sulfate 1 binding site; other site 416870005151 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 416870005152 putative RNA binding site [nucleotide binding]; other site 416870005153 Asp23 family; Region: Asp23; cl00574 416870005154 elongation factor P; Validated; Region: PRK00529 416870005155 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 416870005156 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 416870005157 RNA binding site [nucleotide binding]; other site 416870005158 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 416870005159 RNA binding site [nucleotide binding]; other site 416870005160 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 416870005161 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 416870005162 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 416870005163 active site 416870005164 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870005165 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 416870005166 TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low...; Region: TOPRIM_RNase_M5_like; cd01027 416870005167 putative active site [active] 416870005168 putative metal binding site [ion binding]; other site 416870005169 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 416870005170 topology modulation protein; Reviewed; Region: PRK08118 416870005171 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 416870005172 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 416870005173 active site 416870005174 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 416870005175 Tn1545-related conjugative transposon integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes bacterial (gram positive) and phage integrases, including those similar to Tn1545, Tn5252, and...; Region: INT_Tn1545_C; cd01199 416870005176 Int/Topo IB signature motif; other site 416870005177 Antirestriction protein (ArdA); Region: ArdA; cl01953 416870005178 NlpC/P60 family; Region: NLPC_P60; cl11438 416870005179 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 416870005180 HTH-like domain; Region: HTH_21; pfam13276 416870005181 Integrase core domain; Region: rve; cl01316 416870005182 Integrase core domain; Region: rve_3; cl15866 416870005183 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 416870005184 catalytic core [active] 416870005185 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 416870005186 PhoU domain; Region: PhoU; pfam01895 416870005187 PhoU domain; Region: PhoU; pfam01895 416870005188 phosphate transporter ATP-binding protein; Provisional; Region: PRK14239 416870005189 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 416870005190 Walker A/P-loop; other site 416870005191 ATP binding site [chemical binding]; other site 416870005192 Q-loop/lid; other site 416870005193 ABC transporter signature motif; other site 416870005194 Walker B; other site 416870005195 D-loop; other site 416870005196 H-loop/switch region; other site 416870005197 phosphate transporter ATP-binding protein; Provisional; Region: PRK14237 416870005198 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 416870005199 Walker A/P-loop; other site 416870005200 ATP binding site [chemical binding]; other site 416870005201 Q-loop/lid; other site 416870005202 ABC transporter signature motif; other site 416870005203 Walker B; other site 416870005204 D-loop; other site 416870005205 H-loop/switch region; other site 416870005206 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 416870005207 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 416870005208 dimer interface [polypeptide binding]; other site 416870005209 conserved gate region; other site 416870005210 putative PBP binding loops; other site 416870005211 ABC-ATPase subunit interface; other site 416870005212 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 416870005213 dimer interface [polypeptide binding]; other site 416870005214 conserved gate region; other site 416870005215 putative PBP binding loops; other site 416870005216 ABC-ATPase subunit interface; other site 416870005217 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 416870005218 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 416870005219 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 416870005220 SmpB-tmRNA interface; other site 416870005221 Helix-turn-helix domains; Region: HTH; cl00088 416870005222 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 416870005223 dimer interface [polypeptide binding]; other site 416870005224 FMN binding site [chemical binding]; other site 416870005225 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 416870005226 active site 416870005227 catalytic triad [active] 416870005228 oxyanion hole [active] 416870005229 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 416870005230 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 416870005231 motif 1; other site 416870005232 active site 416870005233 motif 2; other site 416870005234 motif 3; other site 416870005235 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 416870005236 DHHA1 domain; Region: DHHA1; pfam02272 416870005237 foldase protein PrsA; Reviewed; Region: prsA; PRK01326 416870005238 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 416870005239 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 416870005240 S-adenosylmethionine binding site [chemical binding]; other site 416870005241 Oligoendopeptidase F [Amino acid transport and metabolism]; Region: COG1164 416870005242 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 416870005243 active site 416870005244 Zn binding site [ion binding]; other site 416870005245 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 416870005246 putative active site [active] 416870005247 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 416870005248 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 416870005249 Sulfate transporter family; Region: Sulfate_transp; cl15842 416870005250 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 416870005251 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 416870005252 active site 416870005253 motif I; other site 416870005254 motif II; other site 416870005255 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 416870005256 CoB--CoM heterodisulfide reductase, subunit B; Region: CoB_CoM_SS_B; TIGR03288 416870005257 Cysteine-rich domain; Region: CCG; pfam02754 416870005258 Cysteine-rich domain; Region: CCG; pfam02754 416870005259 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 416870005260 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 416870005261 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 416870005262 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 416870005263 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 416870005264 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 416870005265 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 416870005266 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 416870005267 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 416870005268 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 416870005269 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 416870005270 Family description; Region: UvrD_C_2; cl15862 416870005271 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 416870005272 catalytic core [active] 416870005273 prephenate dehydratase; Provisional; Region: PRK11898 416870005274 Prephenate dehydratase; Region: PDT; pfam00800 416870005275 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 416870005276 putative L-Phe binding site [chemical binding]; other site 416870005277 shikimate kinase; Reviewed; Region: aroK; PRK00131 416870005278 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 416870005279 ADP binding site [chemical binding]; other site 416870005280 magnesium binding site [ion binding]; other site 416870005281 putative shikimate binding site; other site 416870005282 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 416870005283 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 416870005284 hinge; other site 416870005285 active site 416870005286 prephenate dehydrogenase; Validated; Region: PRK06545 416870005287 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870005288 C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH); Region: ACT_PDH-BS; cd04909 416870005289 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 416870005290 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 416870005291 ATP binding site [chemical binding]; other site 416870005292 Mg2+ binding site [ion binding]; other site 416870005293 G-X-G motif; other site 416870005294 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 416870005295 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 416870005296 active site 416870005297 phosphorylation site [posttranslational modification] 416870005298 intermolecular recognition site; other site 416870005299 dimerization interface [polypeptide binding]; other site 416870005300 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 416870005301 DNA binding site [nucleotide binding] 416870005302 VanZ like family; Region: VanZ; cl01971 416870005303 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 416870005304 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 416870005305 Walker A/P-loop; other site 416870005306 ATP binding site [chemical binding]; other site 416870005307 Q-loop/lid; other site 416870005308 ABC transporter signature motif; other site 416870005309 Walker B; other site 416870005310 D-loop; other site 416870005311 H-loop/switch region; other site 416870005312 Protein of unknown function (DUF1093); Region: DUF1093; cl02185 416870005313 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 416870005314 Tetramer interface [polypeptide binding]; other site 416870005315 active site 416870005316 FMN-binding site [chemical binding]; other site 416870005317 Protein of unknown function (DUF1054); Region: DUF1054; cl11544 416870005318 Protein of unknown function, DUF606; Region: DUF606; cl01273 416870005319 Protein of unknown function, DUF606; Region: DUF606; cl01273 416870005320 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 416870005321 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 416870005322 active site 416870005323 dimer interface [polypeptide binding]; other site 416870005324 metal binding site [ion binding]; metal-binding site 416870005325 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 416870005326 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 416870005327 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 416870005328 shikimate binding site; other site 416870005329 NAD(P) binding site [chemical binding]; other site 416870005330 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 416870005331 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 416870005332 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 416870005333 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 416870005334 substrate binding pocket [chemical binding]; other site 416870005335 membrane-bound complex binding site; other site 416870005336 hinge residues; other site 416870005337 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 416870005338 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 416870005339 substrate binding pocket [chemical binding]; other site 416870005340 membrane-bound complex binding site; other site 416870005341 hinge residues; other site 416870005342 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 416870005343 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 416870005344 dimer interface [polypeptide binding]; other site 416870005345 conserved gate region; other site 416870005346 putative PBP binding loops; other site 416870005347 ABC-ATPase subunit interface; other site 416870005348 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 416870005349 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 416870005350 Walker A/P-loop; other site 416870005351 ATP binding site [chemical binding]; other site 416870005352 Q-loop/lid; other site 416870005353 ABC transporter signature motif; other site 416870005354 Walker B; other site 416870005355 D-loop; other site 416870005356 H-loop/switch region; other site 416870005357 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 416870005358 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 416870005359 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 416870005360 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 416870005361 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 416870005362 alpha subunit interaction interface [polypeptide binding]; other site 416870005363 Walker A motif; other site 416870005364 ATP binding site [chemical binding]; other site 416870005365 Walker B motif; other site 416870005366 inhibitor binding site; inhibition site 416870005367 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 416870005368 ATP synthase; Region: ATP-synt; cl00365 416870005369 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 416870005370 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 416870005371 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 416870005372 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 416870005373 beta subunit interaction interface [polypeptide binding]; other site 416870005374 Walker A motif; other site 416870005375 ATP binding site [chemical binding]; other site 416870005376 Walker B motif; other site 416870005377 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 416870005378 Plant ATP synthase F0; Region: YMF19; cl07975 416870005379 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 416870005380 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 416870005381 Plant ATP synthase F0; Region: YMF19; cl07975 416870005382 ATP synthase A chain; Region: ATP-synt_A; cl00413 416870005383 ATP synthase subunit C; Region: ATP-synt_C; cl00466 416870005384 Predicted esterase [General function prediction only]; Region: COG0627 416870005385 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 416870005386 SLBB domain; Region: SLBB; pfam10531 416870005387 comEA protein; Region: comE; TIGR01259 416870005388 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 416870005389 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 416870005390 ABC-2 type transporter; Region: ABC2_membrane; cl11417 416870005391 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 416870005392 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 416870005393 Walker A/P-loop; other site 416870005394 ATP binding site [chemical binding]; other site 416870005395 Q-loop/lid; other site 416870005396 ABC transporter signature motif; other site 416870005397 Walker B; other site 416870005398 D-loop; other site 416870005399 H-loop/switch region; other site 416870005400 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 416870005401 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 416870005402 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 416870005403 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 416870005404 transmembrane helices; other site 416870005405 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 416870005406 Zinc finger domain containing protein (CHY type) [Function unknown]; Region: COG4357 416870005407 CHY zinc finger; Region: zf-CHY; pfam05495 416870005408 Helix-turn-helix domains; Region: HTH; cl00088 416870005409 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 416870005410 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 416870005411 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 416870005412 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 416870005413 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 416870005414 AMP-binding enzyme; Region: AMP-binding; cl15778 416870005415 Ubiquitin-like proteins; Region: UBQ; cl00155 416870005416 Proteins of 100 residues with WXG; Region: WXG100; cl02005 416870005417 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 416870005418 FeS assembly protein SufB; Region: sufB; TIGR01980 416870005419 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 416870005420 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 416870005421 trimerization site [polypeptide binding]; other site 416870005422 active site 416870005423 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 416870005424 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 416870005425 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 416870005426 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 416870005427 catalytic residue [active] 416870005428 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 416870005429 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 416870005430 FeS assembly ATPase SufC; Region: sufC; TIGR01978 416870005431 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 416870005432 Walker A/P-loop; other site 416870005433 ATP binding site [chemical binding]; other site 416870005434 Q-loop/lid; other site 416870005435 ABC transporter signature motif; other site 416870005436 Walker B; other site 416870005437 D-loop; other site 416870005438 H-loop/switch region; other site 416870005439 Helix-turn-helix domains; Region: HTH; cl00088 416870005440 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416870005441 Helix-turn-helix domains; Region: HTH; cl00088 416870005442 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 416870005443 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 416870005444 Mg++ binding site [ion binding]; other site 416870005445 putative catalytic motif [active] 416870005446 substrate binding site [chemical binding]; other site 416870005447 Negative regulator of genetic competence (MecA); Region: MecA; cl02022 416870005448 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 416870005449 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 416870005450 Walker A/P-loop; other site 416870005451 ATP binding site [chemical binding]; other site 416870005452 Q-loop/lid; other site 416870005453 ABC transporter signature motif; other site 416870005454 Walker B; other site 416870005455 D-loop; other site 416870005456 H-loop/switch region; other site 416870005457 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 416870005458 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 416870005459 dimer interface [polypeptide binding]; other site 416870005460 conserved gate region; other site 416870005461 putative PBP binding loops; other site 416870005462 ABC-ATPase subunit interface; other site 416870005463 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 416870005464 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 416870005465 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 416870005466 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 416870005467 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 416870005468 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 416870005469 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 416870005470 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 416870005471 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 416870005472 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 416870005473 G-loop; other site 416870005474 DNA binding site [nucleotide binding] 416870005475 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 416870005476 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 416870005477 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 416870005478 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 416870005479 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 416870005480 RPB1 interaction site [polypeptide binding]; other site 416870005481 RPB10 interaction site [polypeptide binding]; other site 416870005482 RPB11 interaction site [polypeptide binding]; other site 416870005483 RPB3 interaction site [polypeptide binding]; other site 416870005484 RPB12 interaction site [polypeptide binding]; other site 416870005485 CodY GAF-like domain; Region: CodY; pfam06018 416870005486 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 416870005487 non-specific DNA binding site [nucleotide binding]; other site 416870005488 salt bridge; other site 416870005489 sequence-specific DNA binding site [nucleotide binding]; other site 416870005490 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 416870005491 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 416870005492 active site 416870005493 Zn binding site [ion binding]; other site 416870005494 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 416870005495 active site 416870005496 DNA binding site [nucleotide binding] 416870005497 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 416870005498 MatE; Region: MatE; cl10513 416870005499 UDP-N-acetylmuramoylalanyl-D-glutamate--L-lysine ligase; Provisional; Region: PRK14022 416870005500 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 416870005501 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 416870005502 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 416870005503 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 416870005504 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 416870005505 NAD binding site [chemical binding]; other site 416870005506 substrate binding site [chemical binding]; other site 416870005507 catalytic Zn binding site [ion binding]; other site 416870005508 tetramer interface [polypeptide binding]; other site 416870005509 structural Zn binding site [ion binding]; other site 416870005510 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 416870005511 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 416870005512 ATP binding site [chemical binding]; other site 416870005513 putative Mg++ binding site [ion binding]; other site 416870005514 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 416870005515 nucleotide binding region [chemical binding]; other site 416870005516 ATP-binding site [chemical binding]; other site 416870005517 RQC domain; Region: RQC; cl09632 416870005518 HRDC domain; Region: HRDC; cl02578 416870005519 inner membrane transporter YjeM; Provisional; Region: PRK15238 416870005520 peptidase T; Region: peptidase-T; TIGR01882 416870005521 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 416870005522 metal binding site [ion binding]; metal-binding site 416870005523 dimer interface [polypeptide binding]; other site 416870005524 Domain of unknown function (DUF1803); Region: DUF1803; pfam08820 416870005525 Domain of unknown function (DUF1803); Region: DUF1803; pfam08820 416870005526 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 416870005527 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 416870005528 DHHA2 domain; Region: DHHA2; pfam02833 416870005529 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 416870005530 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 416870005531 FeS/SAM binding site; other site 416870005532 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 416870005533 Domain of unknown function DUF21; Region: DUF21; pfam01595 416870005534 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 416870005535 Transporter associated domain; Region: CorC_HlyC; cl08393 416870005536 Domain of unknown function DUF20; Region: UPF0118; pfam01594 416870005537 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 416870005538 Helix-turn-helix domains; Region: HTH; cl00088 416870005539 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870005540 NADH(P)-binding; Region: NAD_binding_10; pfam13460 416870005541 NAD(P) binding site [chemical binding]; other site 416870005542 active site 416870005543 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416870005544 Coenzyme A binding pocket [chemical binding]; other site 416870005545 NlpC/P60 family; Region: NLPC_P60; cl11438 416870005546 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 416870005547 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 416870005548 putative uracil binding site [chemical binding]; other site 416870005549 putative active site [active] 416870005550 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 416870005551 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 416870005552 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 416870005553 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 416870005554 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 416870005555 GIY-YIG motif/motif A; other site 416870005556 putative active site [active] 416870005557 putative metal binding site [ion binding]; other site 416870005558 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 416870005559 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 416870005560 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870005561 Thiamine pyrophosphokinase; Region: TPK; cd07995 416870005562 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 416870005563 active site 416870005564 dimerization interface [polypeptide binding]; other site 416870005565 thiamine binding site [chemical binding]; other site 416870005566 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 416870005567 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 416870005568 AsnRS_cyto_like_N: N-terminal, anticodon recognition domain of the type found in human and Saccharomyces cerevisiae cytoplasmic asparaginyl-tRNA synthetase (AsnRS), in Brugia malayai AsnRs and, in various putative bacterial AsnRSs. This domain is a...; Region: AsnRS_cyto_like_N; cd04323 416870005569 putative dimer interface [polypeptide binding]; other site 416870005570 putative anticodon binding site; other site 416870005571 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 416870005572 homodimer interface [polypeptide binding]; other site 416870005573 motif 1; other site 416870005574 motif 2; other site 416870005575 active site 416870005576 motif 3; other site 416870005577 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 416870005578 GIY-YIG motif/motif A; other site 416870005579 active site 416870005580 catalytic site [active] 416870005581 metal binding site [ion binding]; metal-binding site 416870005582 aspartate aminotransferase; Provisional; Region: PRK05764 416870005583 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 416870005584 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416870005585 homodimer interface [polypeptide binding]; other site 416870005586 catalytic residue [active] 416870005587 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 416870005588 DnaQ family exonuclease/DinG family helicase, putative; Region: dinG_rel; TIGR01407 416870005589 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 416870005590 active site 416870005591 substrate binding site [chemical binding]; other site 416870005592 catalytic site [active] 416870005593 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 416870005594 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 416870005595 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 416870005596 Ligand Binding Site [chemical binding]; other site 416870005597 The substrate binding component of an ABC-type lactococcal OppA-like transport system contains; Region: PBP2_Lactococcal_OppA_like; cd08510 416870005598 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 416870005599 peptide binding site [polypeptide binding]; other site 416870005600 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 416870005601 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 416870005602 dimer interface [polypeptide binding]; other site 416870005603 conserved gate region; other site 416870005604 putative PBP binding loops; other site 416870005605 ABC-ATPase subunit interface; other site 416870005606 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 416870005607 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 416870005608 dimer interface [polypeptide binding]; other site 416870005609 conserved gate region; other site 416870005610 putative PBP binding loops; other site 416870005611 ABC-ATPase subunit interface; other site 416870005612 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 416870005613 23S rRNA binding site [nucleotide binding]; other site 416870005614 L21 binding site [polypeptide binding]; other site 416870005615 L13 binding site [polypeptide binding]; other site 416870005616 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 416870005617 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 416870005618 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 416870005619 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 416870005620 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 416870005621 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 416870005622 motif II; other site 416870005623 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 416870005624 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870005625 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 416870005626 Protein of unknown function (DUF1033); Region: DUF1033; cl11549 416870005627 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 416870005628 active site 416870005629 metal binding site [ion binding]; metal-binding site 416870005630 dimerization interface [polypeptide binding]; other site 416870005631 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 416870005632 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 416870005633 active site 416870005634 HIGH motif; other site 416870005635 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 416870005636 KMSKS motif; other site 416870005637 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 416870005638 tRNA binding surface [nucleotide binding]; other site 416870005639 anticodon binding site; other site 416870005640 Protein of unknown function (DUF1211); Region: DUF1211; cl01421 416870005641 serine O-acetyltransferase; Region: cysE; TIGR01172 416870005642 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 416870005643 trimer interface [polypeptide binding]; other site 416870005644 active site 416870005645 substrate binding site [chemical binding]; other site 416870005646 CoA binding site [chemical binding]; other site 416870005647 Domain of unknown function (DUF4343); Region: DUF4343; pfam14243 416870005648 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 416870005649 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 416870005650 RNase E interface [polypeptide binding]; other site 416870005651 trimer interface [polypeptide binding]; other site 416870005652 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 416870005653 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 416870005654 RNase E interface [polypeptide binding]; other site 416870005655 trimer interface [polypeptide binding]; other site 416870005656 active site 416870005657 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 416870005658 putative nucleic acid binding region [nucleotide binding]; other site 416870005659 G-X-X-G motif; other site 416870005660 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 416870005661 RNA binding site [nucleotide binding]; other site 416870005662 domain interface; other site 416870005663 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02458 416870005664 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 416870005665 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 416870005666 active site 416870005667 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 416870005668 Ligand Binding Site [chemical binding]; other site 416870005669 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 416870005670 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 416870005671 catalytic residue [active] 416870005672 Putative amino acid metabolism; Region: DUF1831; pfam08866 416870005673 elongation factor Tu; Reviewed; Region: PRK00049 416870005674 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 416870005675 G1 box; other site 416870005676 GEF interaction site [polypeptide binding]; other site 416870005677 GTP/Mg2+ binding site [chemical binding]; other site 416870005678 Switch I region; other site 416870005679 G2 box; other site 416870005680 G3 box; other site 416870005681 Switch II region; other site 416870005682 G4 box; other site 416870005683 G5 box; other site 416870005684 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 416870005685 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 416870005686 Antibiotic Binding Site [chemical binding]; other site 416870005687 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 416870005688 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 416870005689 active site 416870005690 HIGH motif; other site 416870005691 nucleotide binding site [chemical binding]; other site 416870005692 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 416870005693 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 416870005694 active site 416870005695 KMSKS motif; other site 416870005696 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 416870005697 tRNA binding surface [nucleotide binding]; other site 416870005698 anticodon binding site; other site 416870005699 DivIVA protein; Region: DivIVA; pfam05103 416870005700 DivIVA domain; Region: DivI1A_domain; TIGR03544 416870005701 Invariant surface glycoprotein; Region: ISG65-75; cl15448 416870005702 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 416870005703 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 416870005704 YGGT family; Region: YGGT; cl00508 416870005705 Protein of unknown function (DUF552); Region: DUF552; cl00775 416870005706 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 416870005707 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 416870005708 catalytic residue [active] 416870005709 cell division protein FtsZ; Validated; Region: PRK09330 416870005710 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 416870005711 nucleotide binding site [chemical binding]; other site 416870005712 SulA interaction site; other site 416870005713 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 416870005714 Cell division protein FtsA; Region: FtsA; cl11496 416870005715 Cell division protein FtsA; Region: FtsA; cl11496 416870005716 Domain of unknown function (DUF3484); Region: DUF3484; pfam11983 416870005717 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 416870005718 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 416870005719 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 416870005720 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 416870005721 FAD dependent oxidoreductase; Region: DAO; pfam01266 416870005722 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 416870005723 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 416870005724 active site 416870005725 catalytic tetrad [active] 416870005726 Major Facilitator Superfamily; Region: MFS_1; pfam07690 416870005727 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 416870005728 putative substrate translocation pore; other site 416870005729 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 416870005730 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416870005731 Helix-turn-helix domains; Region: HTH; cl00088 416870005732 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 416870005733 dimerization interface [polypeptide binding]; other site 416870005734 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 416870005735 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 416870005736 DNA binding residues [nucleotide binding] 416870005737 putative dimer interface [polypeptide binding]; other site 416870005738 Peptidase C1B subfamily (MEROPS database nomenclature); composed of eukaryotic bleomycin hydrolases (BH) and bacterial aminopeptidases C (pepC). The proteins of this subfamily contain a large insert relative to the C1A peptidase (papain) subfamily. BH is...; Region: Peptidase_C1B; cd00585 416870005739 trimer interface [polypeptide binding]; other site 416870005740 active site 416870005741 G bulge; other site 416870005742 Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]; Region: COG1713 416870005743 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 416870005744 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 416870005745 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Provisional; Region: PRK07164 416870005746 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 416870005747 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 416870005748 dimer interface [polypeptide binding]; other site 416870005749 ADP-ribose binding site [chemical binding]; other site 416870005750 active site 416870005751 nudix motif; other site 416870005752 metal binding site [ion binding]; metal-binding site 416870005753 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 416870005754 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 416870005755 Substrate binding site; other site 416870005756 Mg++ binding site; other site 416870005757 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 416870005758 active site 416870005759 substrate binding site [chemical binding]; other site 416870005760 CoA binding site [chemical binding]; other site 416870005761 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 416870005762 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870005763 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 416870005764 16S/18S rRNA binding site [nucleotide binding]; other site 416870005765 S13e-L30e interaction site [polypeptide binding]; other site 416870005766 25S rRNA binding site [nucleotide binding]; other site 416870005767 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 416870005768 Catalytic domain of Protein Kinases; Region: PKc; cd00180 416870005769 active site 416870005770 ATP binding site [chemical binding]; other site 416870005771 substrate binding site [chemical binding]; other site 416870005772 activation loop (A-loop); other site 416870005773 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 416870005774 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 416870005775 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cl02768 416870005776 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 416870005777 active site 416870005778 16S rRNA methyltransferase B; Provisional; Region: PRK14902 416870005779 N-terminal RNA binding domain of the methyltransferase Sun. The rRNA-specific 5-methylcytidine transferase Sun, also known as RrmB or Fmu shares the RNA-binding non-catalytic domain with the transcription termination factor NusB. The precise biological...; Region: Methyltransferase_Sun; cd00620 416870005780 putative RNA binding site [nucleotide binding]; other site 416870005781 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 416870005782 LysA is a cell wall endolysin produced by Lactobacillus fermentum, which degrades bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues. The N-terminal glycosyl hydrolase...; Region: GH25_LysA-like; cd06417 416870005783 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 416870005784 active site 416870005785 Phage holin protein (Holin_LLH); Region: Holin_LLH; cl09890 416870005786 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 416870005787 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 416870005788 Head domain of virus receptor-binding proteins (RBP); Region: RBP-H; cd07964 416870005789 trimer interface [polypeptide binding]; other site 416870005790 Phage tail protein; Region: Sipho_tail; pfam05709 416870005791 Phage-related protein [Function unknown]; Region: COG4722; cl15832 416870005792 Phage-related tail protein [Function unknown]; Region: COG5283 416870005793 Phage-related tail protein [Function unknown]; Region: COG5283 416870005794 Phage-related tail protein [Function unknown]; Region: COG5283 416870005795 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 416870005796 N-acetyl-D-glucosamine binding site [chemical binding]; other site 416870005797 catalytic residue [active] 416870005798 Protein of unknown function (DUF1268); Region: DUF1268; pfam06896 416870005799 Phage major tail protein; Region: Phage_tail; pfam04630 416870005800 Protein of unknown function (DUF806); Region: DUF806; pfam05657 416870005801 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 416870005802 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 416870005803 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 416870005804 oligomerization interface [polypeptide binding]; other site 416870005805 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 416870005806 Phage capsid family; Region: Phage_capsid; pfam05065 416870005807 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 416870005808 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 416870005809 oligomer interface [polypeptide binding]; other site 416870005810 active site residues [active] 416870005811 Phage-related protein [Function unknown]; Region: COG4695; cl01923 416870005812 Phage portal protein; Region: Phage_portal; pfam04860 416870005813 Protein of unknown function (DUF1056); Region: DUF1056; pfam06341 416870005814 Phage Terminase; Region: Terminase_1; pfam03354 416870005815 Phage terminase, small subunit; Region: Terminase_4; cl01525 416870005816 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 416870005817 active site 416870005818 Protein of unknown function (DUF722); Region: DUF722; pfam05263 416870005819 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 416870005820 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 416870005821 Walker A motif; other site 416870005822 ATP binding site [chemical binding]; other site 416870005823 Walker B motif; other site 416870005824 arginine finger; other site 416870005825 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 416870005826 Integrase core domain; Region: rve; cl01316 416870005827 Protein of unknown function (DUF1140); Region: DUF1140; pfam06600 416870005828 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 416870005829 trimer interface [polypeptide binding]; other site 416870005830 active site 416870005831 Protein of unknown function (DUF1642); Region: DUF1642; pfam07852 416870005832 Protein of unknown function (DUF1125); Region: DUF1125; pfam06563 416870005833 Protein of unknown function (DUF1031); Region: DUF1031; pfam06275 416870005834 Protein of unknown function (DUF1064); Region: DUF1064; pfam06356 416870005835 Putative replisome organiser protein C-terminus; Region: Rep_Org_C; pfam06926 416870005836 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 416870005837 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 416870005838 dimer interface [polypeptide binding]; other site 416870005839 ssDNA binding site [nucleotide binding]; other site 416870005840 tetramer (dimer of dimers) interface [polypeptide binding]; other site 416870005841 Rad52/22 family double-strand break repair protein; Region: Rad52_Rad22; cl01936 416870005842 Rad52/22 family double-strand break repair protein; Region: Rad52_Rad22; cl01936 416870005843 Hypothetical protein (DUF2513); Region: DUF2513; pfam10711 416870005844 Protein of unknown function (DUF2829); Region: DUF2829; pfam11195 416870005845 BRO family, N-terminal domain; Region: Bro-N; cl10591 416870005846 Phage antirepressor protein KilAC domain; Region: ANT; cl01462 416870005847 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 416870005848 non-specific DNA binding site [nucleotide binding]; other site 416870005849 salt bridge; other site 416870005850 sequence-specific DNA binding site [nucleotide binding]; other site 416870005851 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 416870005852 non-specific DNA binding site [nucleotide binding]; other site 416870005853 salt bridge; other site 416870005854 sequence-specific DNA binding site [nucleotide binding]; other site 416870005855 Domain of unknown function (DUF955); Region: DUF955; cl01076 416870005856 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 416870005857 Int/Topo IB signature motif; other site 416870005858 Asp23 family; Region: Asp23; cl00574 416870005859 Small integral membrane protein (DUF2273); Region: DUF2273; cl11575 416870005860 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 416870005861 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 416870005862 putative active site [active] 416870005863 substrate binding site [chemical binding]; other site 416870005864 putative cosubstrate binding site; other site 416870005865 catalytic site [active] 416870005866 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 416870005867 substrate binding site [chemical binding]; other site 416870005868 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 416870005869 dimer interface [polypeptide binding]; other site 416870005870 Contains a crystal structure of the Nudix hydrolase from Enterococcus faecalis, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_25; cd04684 416870005871 nudix motif; other site 416870005872 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 416870005873 Protein of unknown function (DUF1006); Region: DUF1006; cl15826 416870005874 Protein of unknown function (DUF1006); Region: DUF1006; cl15826 416870005875 primosome assembly protein PriA; Validated; Region: PRK05580 416870005876 primosome assembly protein PriA; Validated; Region: PRK05580 416870005877 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 416870005878 ATP binding site [chemical binding]; other site 416870005879 putative Mg++ binding site [ion binding]; other site 416870005880 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 416870005881 nucleotide binding region [chemical binding]; other site 416870005882 ATP-binding site [chemical binding]; other site 416870005883 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 416870005884 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 416870005885 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 416870005886 catalytic site [active] 416870005887 G-X2-G-X-G-K; other site 416870005888 phosphodiesterase; Provisional; Region: PRK12704 416870005889 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 416870005890 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 416870005891 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 416870005892 active site 416870005893 trimer interface [polypeptide binding]; other site 416870005894 allosteric site; other site 416870005895 active site lid [active] 416870005896 S-adenosylmethionine synthetase; Validated; Region: PRK05250 416870005897 S-adenosylmethionine synthetase; Validated; Region: PRK05250 416870005898 S-adenosylmethionine synthetase; Validated; Region: PRK05250 416870005899 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 416870005900 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 416870005901 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 416870005902 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 416870005903 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 416870005904 S-adenosylmethionine binding site [chemical binding]; other site 416870005905 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 416870005906 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 416870005907 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 416870005908 PspC domain; Region: PspC; cl00864 416870005909 Uncharacterized conserved protein [Function unknown]; Region: COG3595 416870005910 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 416870005911 N-acetylmuramoyl-L-alanine amidase; Validated; Region: PRK08581 416870005912 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 416870005913 NlpC/P60 family; Region: NLPC_P60; cl11438 416870005914 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 416870005915 hypothetical protein; Provisional; Region: PRK08185 416870005916 intersubunit interface [polypeptide binding]; other site 416870005917 active site 416870005918 zinc binding site [ion binding]; other site 416870005919 Na+ binding site [ion binding]; other site 416870005920 Predicted membrane protein [Function unknown]; Region: COG2860 416870005921 UPF0126 domain; Region: UPF0126; pfam03458 416870005922 UPF0126 domain; Region: UPF0126; pfam03458 416870005923 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 416870005924 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 416870005925 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 416870005926 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 416870005927 active site 416870005928 dimer interface [polypeptide binding]; other site 416870005929 motif 1; other site 416870005930 motif 2; other site 416870005931 motif 3; other site 416870005932 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 416870005933 anticodon binding site; other site 416870005934 ATP cone domain; Region: ATP-cone; pfam03477 416870005935 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 416870005936 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 416870005937 Nitroreductase-like family 4. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_4; cd02140 416870005938 dimer interface [polypeptide binding]; other site 416870005939 FMN binding site [chemical binding]; other site 416870005940 Helix-turn-helix domains; Region: HTH; cl00088 416870005941 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 416870005942 HTH-like domain; Region: HTH_21; pfam13276 416870005943 Integrase core domain; Region: rve; cl01316 416870005944 Integrase core domain; Region: rve_3; cl15866 416870005945 Helix-turn-helix domains; Region: HTH; cl00088 416870005946 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416870005947 Helix-turn-helix domains; Region: HTH; cl00088 416870005948 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 416870005949 active site 416870005950 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 416870005951 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 416870005952 cystathionine gamma-synthase; Reviewed; Region: PRK07269 416870005953 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 416870005954 homodimer interface [polypeptide binding]; other site 416870005955 substrate-cofactor binding pocket; other site 416870005956 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416870005957 catalytic residue [active] 416870005958 Homoserine O-succinyltransferase; Region: HTS; pfam04204 416870005959 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 416870005960 proposed active site lysine [active] 416870005961 conserved cys residue [active] 416870005962 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity. They also contain a...; Region: Nudix_Hydrolase_1; cd03674 416870005963 nudix motif; other site 416870005964 Membrane transport protein; Region: Mem_trans; cl09117 416870005965 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 416870005966 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 416870005967 active site 416870005968 catalytic residues [active] 416870005969 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 416870005970 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is inactive in...; Region: YhaM_OBF_like; cd04492 416870005971 generic binding surface II; other site 416870005972 generic binding surface I; other site 416870005973 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 416870005974 Apolipoprotein A1/A4/E domain; Region: Apolipoprotein; pfam01442 416870005975 RmuC family; Region: RmuC; pfam02646 416870005976 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 416870005977 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 416870005978 active site 416870005979 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 416870005980 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 416870005981 substrate binding site [chemical binding]; other site 416870005982 hexamer interface [polypeptide binding]; other site 416870005983 metal binding site [ion binding]; metal-binding site 416870005984 GTPase RsgA; Reviewed; Region: PRK00098 416870005985 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 416870005986 RNA binding site [nucleotide binding]; other site 416870005987 homodimer interface [polypeptide binding]; other site 416870005988 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 416870005989 GTPase/Zn-binding domain interface [polypeptide binding]; other site 416870005990 GTP/Mg2+ binding site [chemical binding]; other site 416870005991 G4 box; other site 416870005992 G1 box; other site 416870005993 Switch I region; other site 416870005994 G2 box; other site 416870005995 G3 box; other site 416870005996 Switch II region; other site 416870005997 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 416870005998 3D domain; Region: 3D; cl01439 416870005999 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 416870006000 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 416870006001 putative tRNA-binding site [nucleotide binding]; other site 416870006002 B3/4 domain; Region: B3_4; cl11458 416870006003 tRNA synthetase B5 domain; Region: B5; cl08394 416870006004 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 416870006005 dimer interface [polypeptide binding]; other site 416870006006 motif 1; other site 416870006007 motif 3; other site 416870006008 motif 2; other site 416870006009 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 416870006010 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 416870006011 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 416870006012 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 416870006013 dimer interface [polypeptide binding]; other site 416870006014 motif 1; other site 416870006015 active site 416870006016 motif 2; other site 416870006017 motif 3; other site 416870006018 Phenolic acid decarboxylase (PAD); Region: PA_decarbox; cl01382 416870006019 Helix-turn-helix domains; Region: HTH; cl00088 416870006020 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 416870006021 GH18 domain of Chitinase D (ChiD). ChiD, a chitinase found in Bacillus circulans, hydrolyzes the 1,4-beta-linkages of N-acetylglucosamine in chitin and chitodextrins. The domain architecture of ChiD includes a catalytic glycosyl hydrolase family 18; Region: GH18_chitinase_D-like; cd02871 416870006022 Glycosyl hydrolases family 18; Region: Glyco_hydro_18; pfam00704 416870006023 putative active site [active] 416870006024 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 416870006025 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cd00036 416870006026 chitin/cellulose binding site [chemical binding]; other site 416870006027 Chitin binding domain; Region: Chitin_bind_3; cl03871 416870006028 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 416870006029 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 416870006030 GDP-binding site [chemical binding]; other site 416870006031 ACT binding site; other site 416870006032 IMP binding site; other site 416870006033 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 416870006034 Cadmium resistance transporter; Region: Cad; cl04177 416870006035 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 416870006036 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 416870006037 dimerization interface [polypeptide binding]; other site 416870006038 domain crossover interface; other site 416870006039 redox-dependent activation switch; other site 416870006040 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 416870006041 folate binding site [chemical binding]; other site 416870006042 NADP+ binding site [chemical binding]; other site 416870006043 Protein of unknown function (DUF805); Region: DUF805; cl01224 416870006044 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 416870006045 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 416870006046 FMN binding site [chemical binding]; other site 416870006047 active site 416870006048 catalytic residues [active] 416870006049 substrate binding site [chemical binding]; other site 416870006050 Uncharacterized conserved protein [Function unknown]; Region: COG1284 416870006051 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 416870006052 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 416870006053 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 416870006054 Uncharacterized conserved protein [Function unknown]; Region: COG1284 416870006055 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 416870006056 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 416870006057 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 416870006058 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 416870006059 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 416870006060 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 416870006061 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 416870006062 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 416870006063 dimer interface [polypeptide binding]; other site 416870006064 anticodon binding site; other site 416870006065 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 416870006066 homodimer interface [polypeptide binding]; other site 416870006067 motif 1; other site 416870006068 active site 416870006069 motif 2; other site 416870006070 GAD domain; Region: GAD; pfam02938 416870006071 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 416870006072 active site 416870006073 motif 3; other site 416870006074 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 416870006075 nucleotide binding site/active site [active] 416870006076 HIT family signature motif; other site 416870006077 catalytic residue [active] 416870006078 histidyl-tRNA synthetase; Region: hisS; TIGR00442 416870006079 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 416870006080 dimer interface [polypeptide binding]; other site 416870006081 motif 1; other site 416870006082 active site 416870006083 motif 2; other site 416870006084 motif 3; other site 416870006085 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 416870006086 anticodon binding site; other site 416870006087 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 416870006088 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 416870006089 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 416870006090 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 416870006091 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 416870006092 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 416870006093 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 416870006094 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 416870006095 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 416870006096 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 416870006097 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 416870006098 recombination protein F; Reviewed; Region: recF; PRK00064 416870006099 RecF is a recombinational DNA repair ATPase that maintains replication in the presence of DNA damage. When replication is prematurely disrupted by DNA damage, several recF pathway gene products play critical roles processing the arrested replication...; Region: ABC_RecF; cd03242 416870006100 Walker A/P-loop; other site 416870006101 ATP binding site [chemical binding]; other site 416870006102 Q-loop/lid; other site 416870006103 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 416870006104 ABC transporter signature motif; other site 416870006105 Walker B; other site 416870006106 D-loop; other site 416870006107 H-loop/switch region; other site 416870006108 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 416870006109 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 416870006110 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 416870006111 DNA binding residues [nucleotide binding] 416870006112 putative dimer interface [polypeptide binding]; other site 416870006113 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 416870006114 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 416870006115 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 416870006116 NAD binding site [chemical binding]; other site 416870006117 homodimer interface [polypeptide binding]; other site 416870006118 active site 416870006119 substrate binding site [chemical binding]; other site 416870006120 galactose-1-phosphate uridylyltransferase, family 2; Region: galT_2; TIGR01239 416870006121 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 416870006122 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 416870006123 galactokinase; Provisional; Region: PRK05322 416870006124 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 416870006125 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 416870006126 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 416870006127 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 416870006128 active site 416870006129 catalytic residues [active] 416870006130 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 416870006131 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 416870006132 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 416870006133 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 416870006134 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 416870006135 putative active site [active] 416870006136 nicotinamide-nucleotide adenylyltransferase, NadR type; Region: nadR_NMN_Atrans; TIGR01526 416870006137 Nicotinamide/nicotinate mononucleotide adenylyltransferase of bifunctional NadR-like proteins; Region: NMNAT_NadR; cd02167 416870006138 active site 416870006139 (T/H)XGH motif; other site 416870006140 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 416870006141 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 416870006142 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870006143 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 416870006144 Peptidase family U32; Region: Peptidase_U32; cl03113 416870006145 Radical SAM superfamily; Region: Radical_SAM; pfam04055 416870006146 Peptidase family U32; Region: Peptidase_U32; cl03113 416870006147 Protein of unknown function (DUF3270); Region: DUF3270; pfam11674 416870006148 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 416870006149 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870006150 AAA domain; Region: AAA_23; pfam13476 416870006151 AAA domain; Region: AAA_21; pfam13304 416870006152 Terminase small subunit; Region: Terminase_2; cl01513 416870006153 Phage associated DNA primase [General function prediction only]; Region: COG3378 416870006154 D5 N terminal like; Region: D5_N; cl07360 416870006155 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 416870006156 Prim_Pol: Primase-polymerase (primpol) domain of the type found in bifunctional replicases from archaeal plasmids, including ORF904 protein of the crenarchaeal plasmid pRN1 from Sulfolobus islandicus (pRN1 primpol). These primpol domains belong to the...; Region: Prim_Pol; cd04859 416870006157 polymerase nucleotide-binding site; other site 416870006158 DNA-binding residues [nucleotide binding]; DNA binding site 416870006159 nucleotide binding site [chemical binding]; other site 416870006160 primase nucleotide-binding site [nucleotide binding]; other site 416870006161 Primase C terminal 1 (PriCT-1); Region: PriCT_1; cl07362 416870006162 Uncharacterized phage-encoded protein [Function unknown]; Region: COG3646 416870006163 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 416870006164 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 416870006165 non-specific DNA binding site [nucleotide binding]; other site 416870006166 salt bridge; other site 416870006167 sequence-specific DNA binding site [nucleotide binding]; other site 416870006168 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 416870006169 Uncharacterized conserved protein [Function unknown]; Region: COG4127 416870006170 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 416870006171 Int/Topo IB signature motif; other site 416870006172 CutC family; Region: CutC; cl01218 416870006173 Bacterial ABC transporter protein EcsB; Region: EcsB; cl11542 416870006174 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 416870006175 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 416870006176 Walker A/P-loop; other site 416870006177 ATP binding site [chemical binding]; other site 416870006178 Q-loop/lid; other site 416870006179 ABC transporter signature motif; other site 416870006180 Walker B; other site 416870006181 D-loop; other site 416870006182 H-loop/switch region; other site 416870006183 Membrane domain of glycerophosphoryl diester phosphodiesterase; Region: GPDPase_memb; cl01974 416870006184 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 416870006185 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 416870006186 putative active site [active] 416870006187 catalytic site [active] 416870006188 putative metal binding site [ion binding]; other site 416870006189 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 416870006190 HIT family signature motif; other site 416870006191 catalytic residue [active] 416870006192 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 416870006193 mRNA/rRNA interface [nucleotide binding]; other site 416870006194 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 416870006195 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 416870006196 23S rRNA interface [nucleotide binding]; other site 416870006197 L7/L12 interface [polypeptide binding]; other site 416870006198 putative thiostrepton binding site; other site 416870006199 L25 interface [polypeptide binding]; other site 416870006200 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 416870006201 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 416870006202 Walker A/P-loop; other site 416870006203 ATP binding site [chemical binding]; other site 416870006204 Q-loop/lid; other site 416870006205 ABC transporter signature motif; other site 416870006206 Walker B; other site 416870006207 D-loop; other site 416870006208 H-loop/switch region; other site 416870006209 Protein of unknown function (DUF1250); Region: DUF1250; cl11485 416870006210 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 416870006211 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 416870006212 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 416870006213 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 416870006214 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416870006215 Coenzyme A binding pocket [chemical binding]; other site 416870006216 ribosome recycling factor; Reviewed; Region: frr; PRK00083 416870006217 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 416870006218 hinge region; other site 416870006219 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 416870006220 putative nucleotide binding site [chemical binding]; other site 416870006221 uridine monophosphate binding site [chemical binding]; other site 416870006222 homohexameric interface [polypeptide binding]; other site 416870006223 Acetokinase family; Region: Acetate_kinase; cl01029 416870006224 propionate/acetate kinase; Provisional; Region: PRK12379 416870006225 Acetokinase family; Region: Acetate_kinase; cl01029 416870006226 propionate/acetate kinase; Provisional; Region: PRK12379 416870006227 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 416870006228 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870006229 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 416870006230 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 416870006231 G1 box; other site 416870006232 putative GEF interaction site [polypeptide binding]; other site 416870006233 GTP/Mg2+ binding site [chemical binding]; other site 416870006234 Switch I region; other site 416870006235 G2 box; other site 416870006236 G3 box; other site 416870006237 Switch II region; other site 416870006238 G4 box; other site 416870006239 G5 box; other site 416870006240 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 416870006241 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 416870006242 LytTr DNA-binding domain; Region: LytTR; cl04498 416870006243 Bacterial protein of unknown function (DUF910); Region: DUF910; cl11543 416870006244 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 416870006245 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 416870006246 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 416870006247 Ferritin-like domain; Region: Ferritin; pfam00210 416870006248 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 416870006249 dimerization interface [polypeptide binding]; other site 416870006250 DPS ferroxidase diiron center [ion binding]; other site 416870006251 ion pore; other site 416870006252 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 416870006253 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 416870006254 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 416870006255 active site 416870006256 DNA polymerase IV; Validated; Region: PRK02406 416870006257 DNA binding site [nucleotide binding] 416870006258 Uncharacterized conserved protein [Function unknown]; Region: COG3760 416870006259 This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the...; Region: PrdX_deacylase; cd04335 416870006260 putative deacylase active site [active] 416870006261 arginine/ornithine antiporter; Region: arg_ornith_anti; TIGR03810 416870006262 transaminase; Validated; Region: PRK07324 416870006263 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 416870006264 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416870006265 homodimer interface [polypeptide binding]; other site 416870006266 catalytic residue [active] 416870006267 carbamate kinase; Reviewed; Region: PRK12686 416870006268 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 416870006269 putative substrate binding site [chemical binding]; other site 416870006270 nucleotide binding site [chemical binding]; other site 416870006271 nucleotide binding site [chemical binding]; other site 416870006272 homodimer interface [polypeptide binding]; other site 416870006273 carbamate kinase; Reviewed; Region: PRK12686 416870006274 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 416870006275 putative substrate binding site [chemical binding]; other site 416870006276 nucleotide binding site [chemical binding]; other site 416870006277 nucleotide binding site [chemical binding]; other site 416870006278 homodimer interface [polypeptide binding]; other site 416870006279 arginine/ornithine antiporter; Region: arg_ornith_anti; TIGR03810 416870006280 ornithine carbamoyltransferase; Validated; Region: PRK02102 416870006281 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 416870006282 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870006283 Amidinotransferase; Region: Amidinotransf; cl12043 416870006284 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 416870006285 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 416870006286 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 416870006287 active site 416870006288 HIGH motif; other site 416870006289 KMSK motif region; other site 416870006290 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 416870006291 tRNA binding surface [nucleotide binding]; other site 416870006292 anticodon binding site; other site 416870006293 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 416870006294 arginine repressor; Region: argR_whole; TIGR01529 416870006295 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 416870006296 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 416870006297 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 416870006298 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 416870006299 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 416870006300 SWIM zinc finger; Region: SWIM; cl15408 416870006301 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 416870006302 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 416870006303 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 416870006304 ATP binding site [chemical binding]; other site 416870006305 putative Mg++ binding site [ion binding]; other site 416870006306 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 416870006307 nucleotide binding region [chemical binding]; other site 416870006308 ATP-binding site [chemical binding]; other site 416870006309 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 416870006310 metal ion-dependent adhesion site (MIDAS); other site 416870006311 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 416870006312 pyruvate oxidase; Region: pyruv_oxi_spxB; TIGR02720 416870006313 PYR/PP interface [polypeptide binding]; other site 416870006314 tetramer interface [polypeptide binding]; other site 416870006315 dimer interface [polypeptide binding]; other site 416870006316 TPP binding site [chemical binding]; other site 416870006317 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 416870006318 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 416870006319 TPP-binding site [chemical binding]; other site 416870006320 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 416870006321 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 416870006322 Protein of unknown function (DUF419); Region: DUF419; cl15265 416870006323 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 416870006324 CAAX protease self-immunity; Region: Abi; cl00558 416870006325 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 416870006326 amphipathic channel; other site 416870006327 Asn-Pro-Ala signature motifs; other site 416870006328 x-prolyl-dipeptidyl aminopeptidase; Provisional; Region: PRK05371 416870006329 X-Prolyl dipeptidyl aminopeptidase PepX, N-terminal; Region: PepX_N; cl07696 416870006330 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 416870006331 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 416870006332 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 416870006333 catalytic triad [active] 416870006334 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 416870006335 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 416870006336 substrate binding pocket [chemical binding]; other site 416870006337 membrane-bound complex binding site; other site 416870006338 hinge residues; other site 416870006339 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK07251 416870006340 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870006341 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 416870006342 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 416870006343 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 416870006344 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 416870006345 active site 416870006346 HIGH motif; other site 416870006347 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 416870006348 active site 416870006349 KMSKS motif; other site 416870006350 Isochorismatase family; Region: Isochorismatase; pfam00857 416870006351 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 416870006352 catalytic triad [active] 416870006353 conserved cis-peptide bond; other site 416870006354 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416870006355 Helix-turn-helix domains; Region: HTH; cl00088 416870006356 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 416870006357 active site 416870006358 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 416870006359 Protein of unknown function (DUF1048); Region: DUF1048; cl01986 416870006360 Protein of unknown function (DUF1048); Region: DUF1048; cl01986 416870006361 Helix-turn-helix domains; Region: HTH; cl00088 416870006362 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 416870006363 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 416870006364 putative active site [active] 416870006365 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 416870006366 DNA repair protein RadA; Provisional; Region: PRK11823 416870006367 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 416870006368 Walker A motif/ATP binding site; other site 416870006369 ATP binding site [chemical binding]; other site 416870006370 Walker B motif; other site 416870006371 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 416870006372 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 416870006373 active site 416870006374 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 416870006375 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 416870006376 active site 416870006377 motif I; other site 416870006378 motif II; other site 416870006379 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 416870006380 dimer interface [polypeptide binding]; other site 416870006381 active site 416870006382 Predicted kinase related to galactokinase and mevalonate kinase [General function prediction only]; Region: COG2605 416870006383 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 416870006384 Glycosyl transferase family 11; Region: Glyco_transf_11; pfam01531 416870006385 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 416870006386 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 416870006387 active site 416870006388 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 416870006389 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 416870006390 active site 416870006391 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 416870006392 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 416870006393 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 416870006394 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 416870006395 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 416870006396 alphaNTD homodimer interface [polypeptide binding]; other site 416870006397 alphaNTD - beta interaction site [polypeptide binding]; other site 416870006398 alphaNTD - beta' interaction site [polypeptide binding]; other site 416870006399 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 416870006400 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 416870006401 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 416870006402 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 416870006403 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 416870006404 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 416870006405 rRNA binding site [nucleotide binding]; other site 416870006406 predicted 30S ribosome binding site; other site 416870006407 adenylate kinase; Reviewed; Region: adk; PRK00279 416870006408 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 416870006409 AMP-binding site [chemical binding]; other site 416870006410 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 416870006411 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 416870006412 SecY translocase; Region: SecY; pfam00344 416870006413 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 416870006414 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 416870006415 23S rRNA binding site [nucleotide binding]; other site 416870006416 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 416870006417 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 416870006418 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 416870006419 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 416870006420 5S rRNA interface [nucleotide binding]; other site 416870006421 L27 interface [polypeptide binding]; other site 416870006422 23S rRNA interface [nucleotide binding]; other site 416870006423 L5 interface [polypeptide binding]; other site 416870006424 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 416870006425 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 416870006426 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 416870006427 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 416870006428 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 416870006429 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 416870006430 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 416870006431 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 416870006432 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 416870006433 KOW motif; Region: KOW; cl00354 416870006434 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 416870006435 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 416870006436 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 416870006437 23S rRNA interface [nucleotide binding]; other site 416870006438 putative translocon interaction site; other site 416870006439 signal recognition particle (SRP54) interaction site; other site 416870006440 L23 interface [polypeptide binding]; other site 416870006441 trigger factor interaction site; other site 416870006442 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 416870006443 23S rRNA interface [nucleotide binding]; other site 416870006444 5S rRNA interface [nucleotide binding]; other site 416870006445 putative antibiotic binding site [chemical binding]; other site 416870006446 L25 interface [polypeptide binding]; other site 416870006447 L27 interface [polypeptide binding]; other site 416870006448 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 416870006449 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 416870006450 G-X-X-G motif; other site 416870006451 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 416870006452 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 416870006453 putative translocon binding site; other site 416870006454 protein-rRNA interface [nucleotide binding]; other site 416870006455 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 416870006456 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 416870006457 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 416870006458 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 416870006459 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 416870006460 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 416870006461 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 416870006462 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 416870006463 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 416870006464 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 416870006465 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 416870006466 MatE; Region: MatE; cl10513 416870006467 MatE; Region: MatE; cl10513 416870006468 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 416870006469 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 416870006470 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416870006471 catalytic residue [active] 416870006472 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 416870006473 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 416870006474 putative homodimer interface [polypeptide binding]; other site 416870006475 KOW motif; Region: KOW; cl00354 416870006476 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 416870006477 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 416870006478 OpgC protein; Region: OpgC_C; cl00792 416870006479 Acyltransferase family; Region: Acyl_transf_3; pfam01757 416870006480 yrhL-like subfamily of SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_yrhL_like; cd01840 416870006481 catalytic triad [active] 416870006482 catalytic triad [active] 416870006483 oxyanion hole [active] 416870006484 Transglycosylase; Region: Transgly; cl07896 416870006485 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 416870006486 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 416870006487 Protein of unknown function (DUF421); Region: DUF421; cl00990 416870006488 Protein of unknown function (DUF3290); Region: DUF3290; pfam11694 416870006489 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 416870006490 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 416870006491 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 416870006492 active site 416870006493 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 416870006494 ABC-ATPase subunit interface; other site 416870006495 dimer interface [polypeptide binding]; other site 416870006496 putative PBP binding regions; other site 416870006497 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 416870006498 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 416870006499 Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor...; Region: AdcA; cd01017 416870006500 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 416870006501 metal binding site [ion binding]; metal-binding site 416870006502 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 416870006503 Helix-turn-helix domains; Region: HTH; cl00088 416870006504 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 416870006505 Type II secretory pathway pseudopilin; Region: PulG; pfam11773 416870006506 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 416870006507 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 416870006508 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 416870006509 Type II/IV secretion system protein; Region: T2SE; pfam00437 416870006510 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 416870006511 Walker A motif; other site 416870006512 ATP binding site [chemical binding]; other site 416870006513 Walker B motif; other site 416870006514 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 416870006515 DNA polymerase III, alpha subunit (gram-positive type) [DNA replication, recombination, and repair]; Region: PolC; COG2176 416870006516 polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two...; Region: polC_OBF; cd04484 416870006517 generic binding surface II; other site 416870006518 generic binding surface I; other site 416870006519 polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two...; Region: polC_OBF; cd04484 416870006520 generic binding surface II; other site 416870006521 generic binding surface I; other site 416870006522 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 416870006523 active site 416870006524 substrate binding site [chemical binding]; other site 416870006525 catalytic site [active] 416870006526 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 416870006527 prolyl-tRNA synthetase; Provisional; Region: PRK09194 416870006528 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 416870006529 dimer interface [polypeptide binding]; other site 416870006530 motif 1; other site 416870006531 active site 416870006532 motif 2; other site 416870006533 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 416870006534 putative deacylase active site [active] 416870006535 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 416870006536 active site 416870006537 motif 3; other site 416870006538 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 416870006539 anticodon binding site; other site 416870006540 RIP metalloprotease RseP; Region: TIGR00054 416870006541 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 416870006542 active site 416870006543 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 416870006544 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 416870006545 protein binding site [polypeptide binding]; other site 416870006546 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 416870006547 putative substrate binding region [chemical binding]; other site 416870006548 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 416870006549 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 416870006550 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 416870006551 catalytic residue [active] 416870006552 putative FPP diphosphate binding site; other site 416870006553 putative FPP binding hydrophobic cleft; other site 416870006554 dimer interface [polypeptide binding]; other site 416870006555 putative IPP diphosphate binding site; other site 416870006556 Preprotein translocase subunit; Region: YajC; cl00806 416870006557 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 416870006558 A new structural DNA glycosylase containing HEAT-like repeats; Region: AlkD_like_1; cd07064 416870006559 active site 416870006560 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 416870006561 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 416870006562 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 416870006563 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 416870006564 protein binding site [polypeptide binding]; other site 416870006565 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 416870006566 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 416870006567 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 416870006568 putative ADP-binding pocket [chemical binding]; other site 416870006569 Protein of unknown function (DUF1797); Region: DUF1797; cl11550 416870006570 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 416870006571 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 416870006572 S-adenosylmethionine binding site [chemical binding]; other site 416870006573 DNA polymerase I; Provisional; Region: PRK05755 416870006574 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 416870006575 active site 416870006576 metal binding site 1 [ion binding]; metal-binding site 416870006577 putative 5' ssDNA interaction site; other site 416870006578 metal binding site 3; metal-binding site 416870006579 metal binding site 2 [ion binding]; metal-binding site 416870006580 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 416870006581 putative DNA binding site [nucleotide binding]; other site 416870006582 putative metal binding site [ion binding]; other site 416870006583 inactive DEDDy 3'-5' exonuclease domain of Bacillus stearothermophilus DNA polymerase I and similar family-A DNA polymerases; Region: DNA_polA_I_Bacillus_like_exo; cd06140 416870006584 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 416870006585 active site 416870006586 DNA binding site [nucleotide binding] 416870006587 catalytic site [active] 416870006588 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 416870006589 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 416870006590 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 416870006591 Negative regulator of septation ring formation [Cell division and chromosome partitioning]; Region: EzrA; COG4477 416870006592 elongation factor Ts; Provisional; Region: tsf; PRK09377 416870006593 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 416870006594 Elongation factor TS; Region: EF_TS; pfam00889 416870006595 Elongation factor TS; Region: EF_TS; pfam00889 416870006596 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 416870006597 rRNA interaction site [nucleotide binding]; other site 416870006598 S8 interaction site; other site 416870006599 putative laminin-1 binding site; other site 416870006600 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 416870006601 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 416870006602 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 416870006603 putative catalytic cysteine [active] 416870006604 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 416870006605 putative active site [active] 416870006606 metal binding site [ion binding]; metal-binding site 416870006607 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 416870006608 NADPH bind site [chemical binding]; other site 416870006609 putative FMN binding site [chemical binding]; other site 416870006610 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 416870006611 FeS/SAM binding site; other site 416870006612 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 416870006613 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 416870006614 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 416870006615 putative substrate translocation pore; other site 416870006616 KxxxW cyclic peptide radical SAM maturase; Region: rSAM_pep_cyc; TIGR04080 416870006617 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 416870006618 FeS/SAM binding site; other site 416870006619 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 416870006620 KxxxW-cyclized secreted peptide; Region: phero_cyc_pep; TIGR04079 416870006621 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 416870006622 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 416870006623 protein binding site [polypeptide binding]; other site 416870006624 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 416870006625 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 416870006626 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 416870006627 active site 416870006628 (T/H)XGH motif; other site 416870006629 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 416870006630 S-adenosylmethionine binding site [chemical binding]; other site 416870006631 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 416870006632 Major Facilitator Superfamily; Region: MFS_1; pfam07690 416870006633 putative substrate translocation pore; other site 416870006634 Major Facilitator Superfamily; Region: MFS_1; pfam07690 416870006635 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 416870006636 Sigma factor regulator C-terminal; Region: Sigma_reg_C; pfam13791 416870006637 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 416870006638 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 416870006639 active site 416870006640 dimer interface [polypeptide binding]; other site 416870006641 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 416870006642 dimer interface [polypeptide binding]; other site 416870006643 active site 416870006644 Flagellin N-methylase; Region: FliB; cl00497 416870006645 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 416870006646 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870006647 NAD(P) binding site [chemical binding]; other site 416870006648 active site 416870006649 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 416870006650 non-specific DNA binding site [nucleotide binding]; other site 416870006651 salt bridge; other site 416870006652 sequence-specific DNA binding site [nucleotide binding]; other site 416870006653 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870006654 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 416870006655 NAD(P) binding site [chemical binding]; other site 416870006656 active site 416870006657 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 416870006658 putative DNA binding site [nucleotide binding]; other site 416870006659 dimerization interface [polypeptide binding]; other site 416870006660 putative Zn2+ binding site [ion binding]; other site 416870006661 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 416870006662 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 416870006663 active site 416870006664 HIGH motif; other site 416870006665 nucleotide binding site [chemical binding]; other site 416870006666 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 416870006667 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 416870006668 active site 416870006669 KMSKS motif; other site 416870006670 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 416870006671 tRNA binding surface [nucleotide binding]; other site 416870006672 anticodon binding site; other site 416870006673 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 416870006674 Fibronectin-binding protein (FBP); Region: FBP; pfam07299 416870006675 Domain of unknown function (DUF1912); Region: DUF1912; pfam08930 416870006676 Protein of unknown function (DUF419); Region: DUF419; cl15265 416870006677 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 416870006678 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 416870006679 B3/4 domain; Region: B3_4; cl11458 416870006680 TRAM domain; Region: TRAM; cl01282 416870006681 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 416870006682 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 416870006683 S-adenosylmethionine binding site [chemical binding]; other site 416870006684 legume lectins; Region: lectin_L-type; cd01951 416870006685 homotetramer interaction site [polypeptide binding]; other site 416870006686 carbohydrate binding site [chemical binding]; other site 416870006687 metal binding site [ion binding]; metal-binding site 416870006688 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 416870006689 MucBP domain; Region: MucBP; pfam06458 416870006690 MucBP domain; Region: MucBP; pfam06458 416870006691 MucBP domain; Region: MucBP; pfam06458 416870006692 RecX family; Region: RecX; cl00936 416870006693 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 416870006694 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 416870006695 gluconate kinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 416870006696 N- and C-terminal domain interface [polypeptide binding]; other site 416870006697 putative active site [active] 416870006698 catalytic site [active] 416870006699 metal binding site [ion binding]; metal-binding site 416870006700 carbohydrate binding site [chemical binding]; other site 416870006701 ATP binding site [chemical binding]; other site 416870006702 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 416870006703 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870006704 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 416870006705 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 416870006706 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 416870006707 putative active site [active] 416870006708 Staphylococcal protein of unknown function (DUF960); Region: DUF960; pfam06124 416870006709 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 416870006710 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 416870006711 putative active site [active] 416870006712 putative metal binding site [ion binding]; other site 416870006713 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 416870006714 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 416870006715 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 416870006716 dimer interface [polypeptide binding]; other site 416870006717 ssDNA binding site [nucleotide binding]; other site 416870006718 tetramer (dimer of dimers) interface [polypeptide binding]; other site 416870006719 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 416870006720 Bacitracin resistance protein BacA; Region: BacA; cl00858 416870006721 Amino acid transporters [Amino acid transport and metabolism]; Region: LysP; COG0833 416870006722 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 416870006723 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 416870006724 Walker A motif; other site 416870006725 ATP binding site [chemical binding]; other site 416870006726 Walker B motif; other site 416870006727 arginine finger; other site 416870006728 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 416870006729 substrate binding site [chemical binding]; other site 416870006730 GAF domain; Region: GAF; cl15785 416870006731 Chorismate mutase type II; Region: CM_2; cl00693 416870006732 glutamine synthetase, type I; Region: GlnA; TIGR00653 416870006733 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 416870006734 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 416870006735 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 416870006736 DNA binding residues [nucleotide binding] 416870006737 Low molecular weight phosphatase family; Region: LMWPc; cd00115 416870006738 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 416870006739 active site 416870006740 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 416870006741 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 416870006742 Walker A motif; other site 416870006743 ATP binding site [chemical binding]; other site 416870006744 Walker B motif; other site 416870006745 arginine finger; other site 416870006746 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 416870006747 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 416870006748 RuvA N terminal domain; Region: RuvA_N; pfam01330 416870006749 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 416870006750 helix-hairpin-helix signature motif; other site 416870006751 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 416870006752 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 416870006753 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 416870006754 ATP binding site [chemical binding]; other site 416870006755 Mg2+ binding site [ion binding]; other site 416870006756 G-X-G motif; other site 416870006757 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 416870006758 ATP binding site [chemical binding]; other site 416870006759 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 416870006760 Protein of unknown function (DUF805); Region: DUF805; cl01224 416870006761 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 416870006762 MutS domain I; Region: MutS_I; pfam01624 416870006763 MutS domain II; Region: MutS_II; pfam05188 416870006764 MutS family domain IV; Region: MutS_IV; pfam05190 416870006765 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 416870006766 Walker A/P-loop; other site 416870006767 ATP binding site [chemical binding]; other site 416870006768 Q-loop/lid; other site 416870006769 ABC transporter signature motif; other site 416870006770 Walker B; other site 416870006771 D-loop; other site 416870006772 H-loop/switch region; other site 416870006773 Protein of unknown function (DUF964); Region: DUF964; cl01483 416870006774 Transposase, Mutator family; Region: Transposase_mut; pfam00872 416870006775 MULE transposase domain; Region: MULE; pfam10551 416870006776 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 416870006777 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870006778 Protein of unknown function (DUF1634); Region: DUF1634; cl01741 416870006779 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 416870006780 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 416870006781 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 416870006782 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 416870006783 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 416870006784 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 416870006785 active site 416870006786 motif I; other site 416870006787 motif II; other site 416870006788 chaperone protein DnaJ; Provisional; Region: PRK14276 416870006789 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 416870006790 HSP70 interaction site [polypeptide binding]; other site 416870006791 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 416870006792 substrate binding site [polypeptide binding]; other site 416870006793 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 416870006794 Zn binding sites [ion binding]; other site 416870006795 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 416870006796 substrate binding site [polypeptide binding]; other site 416870006797 dimer interface [polypeptide binding]; other site 416870006798 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 416870006799 aspartate racemase; Region: asp_race; TIGR00035 416870006800 Predicted ATP-grasp enzyme [General function prediction only]; Region: COG3919 416870006801 ATP-grasp domain; Region: ATP-grasp_4; cl03087 416870006802 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 416870006803 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 416870006804 active site 416870006805 dimer interface [polypeptide binding]; other site 416870006806 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 416870006807 Ligand Binding Site [chemical binding]; other site 416870006808 Molecular Tunnel; other site 416870006809 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 416870006810 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 416870006811 NlpC/P60 family; Region: NLPC_P60; cl11438 416870006812 rod shape-determining protein MreD; Region: MreD; cl01087 416870006813 rod shape-determining protein MreC; Region: MreC; pfam04085 416870006814 Contains a crystal structure of the Nudix hydrolase from Enterococcus faecalis, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_25; cd04684 416870006815 nudix motif; other site 416870006816 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 416870006817 tetramer (dimer of dimers) interface [polypeptide binding]; other site 416870006818 active site 416870006819 dimer interface [polypeptide binding]; other site 416870006820 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 416870006821 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 416870006822 ligand binding site [chemical binding]; other site 416870006823 flexible hinge region; other site 416870006824 Helix-turn-helix domains; Region: HTH; cl00088 416870006825 Major Facilitator Superfamily; Region: MFS_1; pfam07690 416870006826 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 416870006827 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 416870006828 Ligand Binding Site [chemical binding]; other site 416870006829 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 416870006830 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 416870006831 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 416870006832 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 416870006833 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989 416870006834 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 416870006835 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 416870006836 Helix-turn-helix domains; Region: HTH; cl00088 416870006837 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 416870006838 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 416870006839 RNA binding surface [nucleotide binding]; other site 416870006840 PseudoU_synth_RsuA: Pseudouridine synthase, Escherichia coli RsuA like. This group is comprised of eukaryotic and bacterial proteins similar to Escherichia coli RsuA. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PseudoU_synth_RsuA; cd02553 416870006841 active site 416870006842 uracil binding [chemical binding]; other site 416870006843 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 416870006844 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 416870006845 trmE is a tRNA modification GTPase; Region: trmE; cd04164 416870006846 G1 box; other site 416870006847 GTP/Mg2+ binding site [chemical binding]; other site 416870006848 Switch I region; other site 416870006849 G2 box; other site 416870006850 Switch II region; other site 416870006851 G3 box; other site 416870006852 G4 box; other site 416870006853 G5 box; other site 416870006854 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 416870006855 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 416870006856 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 416870006857 generic binding surface II; other site 416870006858 ssDNA binding site; other site 416870006859 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 416870006860 ATP binding site [chemical binding]; other site 416870006861 putative Mg++ binding site [ion binding]; other site 416870006862 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 416870006863 nucleotide binding region [chemical binding]; other site 416870006864 ATP-binding site [chemical binding]; other site 416870006865 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 416870006866 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 416870006867 PhnA protein; Region: PhnA; pfam03831 416870006868 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 416870006869 Int/Topo IB signature motif; other site 416870006870 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 416870006871 BRO family, N-terminal domain; Region: Bro-N; cl10591 416870006872 Glucuronate isomerase; Region: UxaC; cl00829 416870006873 Prim_Pol: Primase-polymerase (primpol) domain of the type found in bifunctional replicases from archaeal plasmids, including ORF904 protein of the crenarchaeal plasmid pRN1 from Sulfolobus islandicus (pRN1 primpol). These primpol domains belong to the...; Region: Prim_Pol; cd04859 416870006874 polymerase nucleotide-binding site; other site 416870006875 DNA-binding residues [nucleotide binding]; DNA binding site 416870006876 nucleotide binding site [chemical binding]; other site 416870006877 primase nucleotide-binding site [nucleotide binding]; other site 416870006878 Primase C terminal 1 (PriCT-1); Region: PriCT_1; cl07362 416870006879 Phage associated DNA primase [General function prediction only]; Region: COG3378 416870006880 D5 N terminal like; Region: D5_N; cl07360 416870006881 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 416870006882 Protein of unknown function (DUF722); Region: DUF722; pfam05263 416870006883 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 416870006884 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870006885 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 416870006886 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 416870006887 seryl-tRNA synthetase; Region: serS; TIGR00414 416870006888 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 416870006889 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 416870006890 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 416870006891 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 416870006892 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 416870006893 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 416870006894 Helix-turn-helix domains; Region: HTH; cl00088 416870006895 oxidoreductase; Provisional; Region: PRK06196 416870006896 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870006897 NAD(P) binding site [chemical binding]; other site 416870006898 active site 416870006899 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 416870006900 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 416870006901 23S rRNA interface [nucleotide binding]; other site 416870006902 L3 interface [polypeptide binding]; other site 416870006903 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 416870006904 FtsX-like permease family; Region: FtsX; cl15850 416870006905 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 416870006906 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 416870006907 Walker A/P-loop; other site 416870006908 ATP binding site [chemical binding]; other site 416870006909 Q-loop/lid; other site 416870006910 ABC transporter signature motif; other site 416870006911 Walker B; other site 416870006912 D-loop; other site 416870006913 H-loop/switch region; other site 416870006914 ribonuclease HIII; Provisional; Region: PRK00996 416870006915 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 416870006916 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 416870006917 RNA/DNA hybrid binding site [nucleotide binding]; other site 416870006918 active site 416870006919 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 416870006920 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 416870006921 Catalytic site [active] 416870006922 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 416870006923 pur operon repressor; Provisional; Region: PRK09213 416870006924 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 416870006925 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 416870006926 active site 416870006927 elongation factor G; Reviewed; Region: PRK00007 416870006928 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 416870006929 G1 box; other site 416870006930 putative GEF interaction site [polypeptide binding]; other site 416870006931 GTP/Mg2+ binding site [chemical binding]; other site 416870006932 Switch I region; other site 416870006933 G2 box; other site 416870006934 G3 box; other site 416870006935 Switch II region; other site 416870006936 G4 box; other site 416870006937 G5 box; other site 416870006938 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 416870006939 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 416870006940 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 416870006941 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 416870006942 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 416870006943 S17 interaction site [polypeptide binding]; other site 416870006944 S8 interaction site; other site 416870006945 16S rRNA interaction site [nucleotide binding]; other site 416870006946 streptomycin interaction site [chemical binding]; other site 416870006947 23S rRNA interaction site [nucleotide binding]; other site 416870006948 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 416870006949 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 416870006950 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 416870006951 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 416870006952 Putative glucose uptake permease [Carbohydrate transport and metabolism]; Region: GlcU; COG4975 416870006953 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870006954 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242