-- dump date 20140619_125329 -- 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 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 416870000017 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 416870000018 Part of AAA domain; Region: AAA_19; pfam13245 416870000019 Family description; Region: UvrD_C_2; pfam13538 416870000020 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 416870000021 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 416870000022 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 416870000023 non-specific DNA binding site [nucleotide binding]; other site 416870000024 salt bridge; other site 416870000025 sequence-specific DNA binding site [nucleotide binding]; other site 416870000026 GTP-binding protein YchF; Reviewed; Region: PRK09601 416870000027 YchF GTPase; Region: YchF; cd01900 416870000028 G1 box; other site 416870000029 GTP/Mg2+ binding site [chemical binding]; other site 416870000030 Switch I region; other site 416870000031 G2 box; other site 416870000032 Switch II region; other site 416870000033 G3 box; other site 416870000034 G4 box; other site 416870000035 G5 box; other site 416870000036 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 416870000037 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 416870000038 non-specific DNA binding site [nucleotide binding]; other site 416870000039 salt bridge; other site 416870000040 sequence-specific DNA binding site [nucleotide binding]; other site 416870000041 Equine arteritis virus GP3; Region: GP3; pfam03076 416870000042 topology modulation protein; Reviewed; Region: PRK08118 416870000043 AAA domain; Region: AAA_17; pfam13207 416870000044 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 416870000045 putative active site [active] 416870000046 catalytic residue [active] 416870000047 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 416870000048 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 416870000049 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 416870000050 ATP binding site [chemical binding]; other site 416870000051 putative Mg++ binding site [ion binding]; other site 416870000052 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 416870000053 nucleotide binding region [chemical binding]; other site 416870000054 ATP-binding site [chemical binding]; other site 416870000055 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 416870000056 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 416870000057 RNA binding surface [nucleotide binding]; other site 416870000058 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 416870000059 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 416870000060 RNA binding site [nucleotide binding]; other site 416870000061 Beta-lactamase class A [Defense mechanisms]; Region: PenP; COG2367 416870000062 SH3-like domain; Region: SH3_8; pfam13457 416870000063 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 416870000064 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 416870000065 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 416870000066 Ligand Binding Site [chemical binding]; other site 416870000067 TilS substrate C-terminal domain; Region: TilS_C; smart00977 416870000068 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 416870000069 active site 416870000070 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 416870000071 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 416870000072 Walker A motif; other site 416870000073 ATP binding site [chemical binding]; other site 416870000074 Walker B motif; other site 416870000075 arginine finger; other site 416870000076 Peptidase family M41; Region: Peptidase_M41; pfam01434 416870000077 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 416870000078 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 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 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 416870000084 active site 416870000085 P-loop; other site 416870000086 phosphorylation site [posttranslational modification] 416870000087 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 416870000088 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 416870000089 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 416870000090 active site 416870000091 P-loop; other site 416870000092 phosphorylation site [posttranslational modification] 416870000093 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 416870000094 active site 416870000095 phosphorylation site [posttranslational modification] 416870000096 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 416870000097 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 416870000098 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 416870000099 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 416870000100 Phage associated DNA primase [General function prediction only]; Region: COG3378 416870000101 D5 N terminal like; Region: D5_N; smart00885 416870000102 Poxvirus D5 protein-like; Region: Pox_D5; pfam03288 416870000103 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 416870000104 polymerase nucleotide-binding site; other site 416870000105 DNA-binding residues [nucleotide binding]; DNA binding site 416870000106 nucleotide binding site [chemical binding]; other site 416870000107 primase nucleotide-binding site [nucleotide binding]; other site 416870000108 Primase C terminal 1 (PriCT-1); Region: PriCT_1; smart00942 416870000109 Protein of unknown function (DUF1655); Region: DUF1655; pfam07868 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 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 416870000112 non-specific DNA binding site [nucleotide binding]; other site 416870000113 salt bridge; other site 416870000114 sequence-specific DNA binding site [nucleotide binding]; other site 416870000115 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 416870000116 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 416870000117 salt bridge; other site 416870000118 non-specific DNA binding site [nucleotide binding]; other site 416870000119 sequence-specific DNA binding site [nucleotide binding]; other site 416870000120 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; cl17626 416870000121 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 416870000122 Integrase core domain; Region: rve; pfam00665 416870000123 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 416870000124 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 416870000125 Walker A motif; other site 416870000126 ATP binding site [chemical binding]; other site 416870000127 Walker B motif; other site 416870000128 arginine finger; other site 416870000129 Enterocin A Immunity; Region: EntA_Immun; pfam08951 416870000130 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 416870000131 Int/Topo IB signature motif; other site 416870000132 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 416870000133 PGAP1-like protein; Region: PGAP1; pfam07819 416870000134 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 416870000135 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416870000136 Coenzyme A binding pocket [chemical binding]; other site 416870000137 Predicted membrane protein [Function unknown]; Region: XynA; COG2314 416870000138 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 416870000139 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 416870000140 Sulfate transporter family; Region: Sulfate_transp; pfam00916 416870000141 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 416870000142 Transposase, Mutator family; Region: Transposase_mut; pfam00872 416870000143 MULE transposase domain; Region: MULE; pfam10551 416870000144 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416870000145 Coenzyme A binding pocket [chemical binding]; other site 416870000146 aromatic amino acid aminotransferase; Validated; Region: PRK07309 416870000147 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 416870000148 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416870000149 homodimer interface [polypeptide binding]; other site 416870000150 catalytic residue [active] 416870000151 Recombination protein O N terminal; Region: RecO_N; pfam11967 416870000152 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecO; COG1381 416870000153 Recombination protein O C terminal; Region: RecO_C; pfam02565 416870000154 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 416870000155 non-specific DNA binding site [nucleotide binding]; other site 416870000156 salt bridge; other site 416870000157 sequence-specific DNA binding site [nucleotide binding]; other site 416870000158 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 416870000159 MFS/sugar transport protein; Region: MFS_2; pfam13347 416870000160 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 416870000161 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 416870000162 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 416870000163 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 416870000164 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 416870000165 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 416870000166 E3 interaction surface; other site 416870000167 lipoyl attachment site [posttranslational modification]; other site 416870000168 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 416870000169 E3 interaction surface; other site 416870000170 lipoyl attachment site [posttranslational modification]; other site 416870000171 e3 binding domain; Region: E3_binding; pfam02817 416870000172 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 416870000173 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 416870000174 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 416870000175 TPP binding site [chemical binding]; other site 416870000176 alpha subunit interface [polypeptide binding]; other site 416870000177 heterodimer interface [polypeptide binding]; other site 416870000178 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 416870000179 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 416870000180 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 416870000181 tetramer interface [polypeptide binding]; other site 416870000182 TPP-binding site [chemical binding]; other site 416870000183 heterodimer interface [polypeptide binding]; other site 416870000184 phosphorylation loop region [posttranslational modification] 416870000185 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 416870000186 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 416870000187 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 416870000188 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 416870000189 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 416870000190 active site 416870000191 catalytic site [active] 416870000192 metal binding site [ion binding]; metal-binding site 416870000193 dimer interface [polypeptide binding]; other site 416870000194 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 416870000195 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 416870000196 Zn2+ binding site [ion binding]; other site 416870000197 Mg2+ binding site [ion binding]; other site 416870000198 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 416870000199 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 416870000200 active site 416870000201 HIGH motif; other site 416870000202 dimer interface [polypeptide binding]; other site 416870000203 KMSKS motif; other site 416870000204 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 416870000205 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 416870000206 putative phosphate acyltransferase; Provisional; Region: PRK05331 416870000207 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 416870000208 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 416870000209 active site 416870000210 motif I; other site 416870000211 motif II; other site 416870000212 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 416870000213 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 416870000214 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 416870000215 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 416870000216 ABC transporter; Region: ABC_tran_2; pfam12848 416870000217 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 416870000218 yiaA/B two helix domain; Region: YiaAB; pfam05360 416870000219 short chain dehydrogenase; Validated; Region: PRK06182 416870000220 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 416870000221 NADP binding site [chemical binding]; other site 416870000222 active site 416870000223 steroid binding site; other site 416870000224 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416870000225 Helix-turn-helix domain; Region: HTH_28; pfam13518 416870000226 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416870000227 Helix-turn-helix domain; Region: HTH_28; pfam13518 416870000228 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 416870000229 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 416870000230 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 416870000231 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 416870000232 homodimer interface [polypeptide binding]; other site 416870000233 substrate-cofactor binding pocket; other site 416870000234 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416870000235 catalytic residue [active] 416870000236 short chain dehydrogenase; Validated; Region: PRK06182 416870000237 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 416870000238 NADP binding site [chemical binding]; other site 416870000239 active site 416870000240 steroid binding site; other site 416870000241 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 416870000242 Ligand Binding Site [chemical binding]; other site 416870000243 Predicted esterase [General function prediction only]; Region: COG0400 416870000244 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 416870000245 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 416870000246 Zn binding site [ion binding]; other site 416870000247 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 416870000248 Zn binding site [ion binding]; other site 416870000249 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 416870000250 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 416870000251 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 416870000252 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 416870000253 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 416870000254 Soluble P-type ATPase [General function prediction only]; Region: COG4087 416870000255 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4705 416870000256 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 416870000257 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 416870000258 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 416870000259 ParB-like nuclease domain; Region: ParBc; pfam02195 416870000260 KorB domain; Region: KorB; pfam08535 416870000261 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]; Region: MGS1; COG2256 416870000262 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 416870000263 Walker A motif; other site 416870000264 ATP binding site [chemical binding]; other site 416870000265 Walker B motif; other site 416870000266 arginine finger; other site 416870000267 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 416870000268 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 416870000269 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416870000270 Coenzyme A binding pocket [chemical binding]; other site 416870000271 Protein of unknown function (DUF3013); Region: DUF3013; pfam11217 416870000272 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 416870000273 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416870000274 Walker A/P-loop; other site 416870000275 ATP binding site [chemical binding]; other site 416870000276 Q-loop/lid; other site 416870000277 ABC transporter signature motif; other site 416870000278 Walker B; other site 416870000279 D-loop; other site 416870000280 H-loop/switch region; other site 416870000281 ABC transporter; Region: ABC_tran_2; pfam12848 416870000282 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 416870000283 Methyltransferase domain; Region: Methyltransf_23; pfam13489 416870000284 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 416870000285 S-adenosylmethionine binding site [chemical binding]; other site 416870000286 Domain of unknown function (DUF1905); Region: DUF1905; pfam08922 416870000287 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 416870000288 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 416870000289 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 416870000290 S-adenosylmethionine binding site [chemical binding]; other site 416870000291 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 416870000292 RNA methyltransferase, RsmE family; Region: TIGR00046 416870000293 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 416870000294 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 416870000295 putative active site [active] 416870000296 putative metal binding site [ion binding]; other site 416870000297 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 416870000298 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 416870000299 Zn2+ binding site [ion binding]; other site 416870000300 Mg2+ binding site [ion binding]; other site 416870000301 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 416870000302 synthetase active site [active] 416870000303 NTP binding site [chemical binding]; other site 416870000304 metal binding site [ion binding]; metal-binding site 416870000305 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 416870000306 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 416870000307 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 416870000308 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 416870000309 Ligand binding site; other site 416870000310 Putative Catalytic site; other site 416870000311 DXD motif; other site 416870000312 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 416870000313 putative active site [active] 416870000314 dimerization interface [polypeptide binding]; other site 416870000315 putative tRNAtyr binding site [nucleotide binding]; other site 416870000316 Predicted integral membrane protein [Function unknown]; Region: COG3548 416870000317 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 416870000318 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 416870000319 amino acid transporter; Region: 2A0306; TIGR00909 416870000320 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 416870000321 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 416870000322 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 416870000323 putative acyl-acceptor binding pocket; other site 416870000324 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 416870000325 MarR family; Region: MarR_2; pfam12802 416870000326 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416870000327 Transposase; Region: HTH_Tnp_1; pfam01527 416870000328 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 416870000329 HTH-like domain; Region: HTH_21; pfam13276 416870000330 Integrase core domain; Region: rve; pfam00665 416870000331 Integrase core domain; Region: rve_3; pfam13683 416870000332 Acyl carrier protein phosphodiesterase [Lipid metabolism]; Region: AcpD; COG1182 416870000333 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 416870000334 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 416870000335 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 416870000336 nucleotide binding region [chemical binding]; other site 416870000337 ATP-binding site [chemical binding]; other site 416870000338 SEC-C motif; Region: SEC-C; pfam02810 416870000339 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroG; COG0722 416870000340 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 416870000341 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 416870000342 dimerization domain swap beta strand [polypeptide binding]; other site 416870000343 regulatory protein interface [polypeptide binding]; other site 416870000344 active site 416870000345 regulatory phosphorylation site [posttranslational modification]; other site 416870000346 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 416870000347 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 416870000348 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 416870000349 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 416870000350 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG0718 416870000351 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 416870000352 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 416870000353 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 416870000354 Malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate cycle, which allows certain organisms, like plants and fungi, to derive their...; Region: malate_synt; cl17217 416870000355 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 416870000356 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 416870000357 Major Facilitator Superfamily; Region: MFS_1; pfam07690 416870000358 putative substrate translocation pore; other site 416870000359 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 416870000360 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 416870000361 Ligand binding site; other site 416870000362 Putative Catalytic site; other site 416870000363 DXD motif; other site 416870000364 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 416870000365 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 416870000366 ATP binding site [chemical binding]; other site 416870000367 Mg2+ binding site [ion binding]; other site 416870000368 G-X-G motif; other site 416870000369 conserved hypothetical integral membrane protein; Region: TIGR03766 416870000370 argininosuccinate synthase; Provisional; Region: PRK13820 416870000371 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 416870000372 ANP binding site [chemical binding]; other site 416870000373 Substrate Binding Site II [chemical binding]; other site 416870000374 Substrate Binding Site I [chemical binding]; other site 416870000375 argininosuccinate lyase; Provisional; Region: PRK00855 416870000376 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 416870000377 active sites [active] 416870000378 tetramer interface [polypeptide binding]; other site 416870000379 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 416870000380 Major Facilitator Superfamily; Region: MFS_1; pfam07690 416870000381 putative substrate translocation pore; other site 416870000382 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 416870000383 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 416870000384 WHG domain; Region: WHG; pfam13305 416870000385 ribonuclease P; Reviewed; Region: rnpA; PRK00499 416870000386 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 416870000387 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 416870000388 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 416870000389 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 416870000390 G-X-X-G motif; other site 416870000391 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 416870000392 RxxxH motif; other site 416870000393 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 416870000394 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 416870000395 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 416870000396 active site 416870000397 catalytic tetrad [active] 416870000398 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 416870000399 non-specific DNA binding site [nucleotide binding]; other site 416870000400 salt bridge; other site 416870000401 sequence-specific DNA binding site [nucleotide binding]; other site 416870000402 CAAX protease self-immunity; Region: Abi; pfam02517 416870000403 hypothetical protein; Provisional; Region: PRK05473 416870000404 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 416870000405 hypothetical protein; Provisional; Region: PRK13678 416870000406 Predicted integral membrane protein [Function unknown]; Region: COG3548 416870000407 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 416870000408 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870000409 NAD(P) binding site [chemical binding]; other site 416870000410 active site 416870000411 Uncharacterized protein conserved in bacteria (DUF2316); Region: DUF2316; pfam10078 416870000412 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 416870000413 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870000414 NAD(P) binding site [chemical binding]; other site 416870000415 active site 416870000416 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 416870000417 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 416870000418 putative DNA binding site [nucleotide binding]; other site 416870000419 putative Zn2+ binding site [ion binding]; other site 416870000420 glycogen branching enzyme; Provisional; Region: PRK12313 416870000421 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 416870000422 Alpha amylase catalytic domain found in bacterial and eukaryotic branching enzymes; Region: AmyAc_bac_euk_BE; cd11321 416870000423 active site 416870000424 catalytic site [active] 416870000425 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 416870000426 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 416870000427 putative FMN binding site [chemical binding]; other site 416870000428 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 416870000429 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 416870000430 Collagen binding domain; Region: Collagen_bind; pfam05737 416870000431 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 416870000432 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 416870000433 non-specific DNA binding site [nucleotide binding]; other site 416870000434 salt bridge; other site 416870000435 sequence-specific DNA binding site [nucleotide binding]; other site 416870000436 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 416870000437 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 416870000438 Protein of unknown function (DUF975); Region: DUF975; cl10504 416870000439 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 416870000440 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 416870000441 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; cl17626 416870000442 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 416870000443 aminotransferase AlaT; Validated; Region: PRK09265 416870000444 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 416870000445 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416870000446 homodimer interface [polypeptide binding]; other site 416870000447 catalytic residue [active] 416870000448 Pleiotropic transcriptional repressor [Transcription]; Region: CodY; COG4465 416870000449 CodY GAF-like domain; Region: CodY; pfam06018 416870000450 CodY helix-turn-helix domain; Region: HTH_CodY; pfam08222 416870000451 Asp-tRNAAsn/Glu-tRNAGln amidotransferase C subunit [Translation, ribosomal structure and biogenesis]; Region: GatC; COG0721 416870000452 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 416870000453 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 416870000454 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 416870000455 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 416870000456 GatB domain; Region: GatB_Yqey; pfam02637 416870000457 amidase; Provisional; Region: PRK06529 416870000458 Amidase; Region: Amidase; cl11426 416870000459 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 416870000460 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 416870000461 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 416870000462 DNA-binding site [nucleotide binding]; DNA binding site 416870000463 RNA-binding motif; other site 416870000464 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 416870000465 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 416870000466 Rhomboid family; Region: Rhomboid; pfam01694 416870000467 Domain of unknown function (DUF3284); Region: DUF3284; pfam11687 416870000468 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 416870000469 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 416870000470 active site 416870000471 metal binding site [ion binding]; metal-binding site 416870000472 Predicted acetyltransferase involved in intracellular survival and related acetyltransferases [General function prediction only]; Region: Eis; COG4552 416870000473 Acetyltransferase (GNAT) domain; Region: Acetyltransf_9; pfam13527 416870000474 Uncharacterized conserved protein [Function unknown]; Region: COG3589 416870000475 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 416870000476 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 416870000477 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 416870000478 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 416870000479 beta-galactosidase; Region: BGL; TIGR03356 416870000480 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 416870000481 trimer interface [polypeptide binding]; other site 416870000482 active site 416870000483 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 416870000484 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 416870000485 active site 416870000486 metal binding site [ion binding]; metal-binding site 416870000487 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 416870000488 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4470 416870000489 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14455 416870000490 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 416870000491 FeS/SAM binding site; other site 416870000492 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 416870000493 dimer interface [polypeptide binding]; other site 416870000494 FMN binding site [chemical binding]; other site 416870000495 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 416870000496 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 416870000497 substrate binding pocket [chemical binding]; other site 416870000498 chain length determination region; other site 416870000499 substrate-Mg2+ binding site; other site 416870000500 catalytic residues [active] 416870000501 aspartate-rich region 1; other site 416870000502 active site lid residues [active] 416870000503 aspartate-rich region 2; other site 416870000504 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 416870000505 UbiA prenyltransferase family; Region: UbiA; pfam01040 416870000506 CAAX protease self-immunity; Region: Abi; pfam02517 416870000507 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 416870000508 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 416870000509 G1 box; other site 416870000510 GTP/Mg2+ binding site [chemical binding]; other site 416870000511 Switch I region; other site 416870000512 G2 box; other site 416870000513 G3 box; other site 416870000514 Switch II region; other site 416870000515 G4 box; other site 416870000516 G5 box; other site 416870000517 Nucleoside recognition; Region: Gate; pfam07670 416870000518 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 416870000519 Nucleoside recognition; Region: Gate; pfam07670 416870000520 FeoA domain; Region: FeoA; pfam04023 416870000521 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 416870000522 methionine sulfoxide reductase B; Provisional; Region: PRK00222 416870000523 SelR domain; Region: SelR; pfam01641 416870000524 Predicted kinase related to dihydroxyacetone kinase [General function prediction only]; Region: COG1461 416870000525 DAK2 domain; Region: Dak2; pfam02734 416870000526 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 416870000527 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 416870000528 Uncharacterized membrane-bound protein conserved in bacteria [Function unknown]; Region: COG4858 416870000529 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 416870000530 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 416870000531 substrate binding site; other site 416870000532 tetramer interface; other site 416870000533 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 416870000534 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 416870000535 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 416870000536 NAD binding site [chemical binding]; other site 416870000537 substrate binding site [chemical binding]; other site 416870000538 homodimer interface [polypeptide binding]; other site 416870000539 active site 416870000540 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 416870000541 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 416870000542 NADP binding site [chemical binding]; other site 416870000543 active site 416870000544 putative substrate binding site [chemical binding]; other site 416870000545 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 416870000546 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 416870000547 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 416870000548 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 416870000549 Probable Catalytic site; other site 416870000550 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 416870000551 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 416870000552 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 416870000553 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 416870000554 Walker A/P-loop; other site 416870000555 ATP binding site [chemical binding]; other site 416870000556 Q-loop/lid; other site 416870000557 ABC transporter signature motif; other site 416870000558 Walker B; other site 416870000559 D-loop; other site 416870000560 H-loop/switch region; other site 416870000561 Predicted membrane protein (DUF2142); Region: DUF2142; pfam09913 416870000562 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 416870000563 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 416870000564 active site 416870000565 Rhamnan synthesis protein F; Region: RgpF; pfam05045 416870000566 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 416870000567 Ligand binding site; other site 416870000568 Putative Catalytic site; other site 416870000569 DXD motif; other site 416870000570 Uncharacterized conserved protein (DUF2304); Region: DUF2304; cl01034 416870000571 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 416870000572 active site 416870000573 putative glycosyl transferase; Provisional; Region: PRK10073 416870000574 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 416870000575 active site 416870000576 Protein of unknown function (DUF3184); Region: DUF3184; pfam11380 416870000577 beta-1,6-galactofuranosyltransferase; Provisional; Region: PRK09814 416870000578 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 416870000579 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 416870000580 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 416870000581 UDP-galactopyranose mutase; Region: GLF; pfam03275 416870000582 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 416870000583 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 416870000584 Predicted membrane protein (DUF2142); Region: DUF2142; pfam09913 416870000585 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 416870000586 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 416870000587 active site 416870000588 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 416870000589 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 416870000590 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 416870000591 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 416870000592 active site 416870000593 GTPase YqeH; Provisional; Region: PRK13796 416870000594 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 416870000595 GTP/Mg2+ binding site [chemical binding]; other site 416870000596 G4 box; other site 416870000597 G5 box; other site 416870000598 G1 box; other site 416870000599 Switch I region; other site 416870000600 G2 box; other site 416870000601 G3 box; other site 416870000602 Switch II region; other site 416870000603 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 416870000604 nudix motif; other site 416870000605 GTPases [General function prediction only]; Region: HflX; COG2262 416870000606 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 416870000607 HflX GTPase family; Region: HflX; cd01878 416870000608 G1 box; other site 416870000609 GTP/Mg2+ binding site [chemical binding]; other site 416870000610 Switch I region; other site 416870000611 G2 box; other site 416870000612 G3 box; other site 416870000613 Switch II region; other site 416870000614 G4 box; other site 416870000615 G5 box; other site 416870000616 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 416870000617 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 416870000618 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 416870000619 active site 416870000620 (T/H)XGH motif; other site 416870000621 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 416870000622 Zn2+ binding site [ion binding]; other site 416870000623 Mg2+ binding site [ion binding]; other site 416870000624 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416870000625 Coenzyme A binding pocket [chemical binding]; other site 416870000626 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 416870000627 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 416870000628 S-adenosylmethionine binding site [chemical binding]; other site 416870000629 hypothetical protein; Provisional; Region: PRK13670 416870000630 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; pfam05636 416870000631 hypothetical protein; Provisional; Region: PRK12378 416870000632 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 416870000633 ligand binding site [chemical binding]; other site 416870000634 active site 416870000635 UGI interface [polypeptide binding]; other site 416870000636 catalytic site [active] 416870000637 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 416870000638 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 416870000639 putative NAD(P) binding site [chemical binding]; other site 416870000640 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870000641 NADH(P)-binding; Region: NAD_binding_10; pfam13460 416870000642 NAD(P) binding site [chemical binding]; other site 416870000643 active site 416870000644 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 416870000645 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870000646 NAD(P) binding site [chemical binding]; other site 416870000647 active site 416870000648 mycofactocin system transcriptional regulator; Region: mycofact_TetR; TIGR03968 416870000649 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 416870000650 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 416870000651 Major Facilitator Superfamily; Region: MFS_1; pfam07690 416870000652 putative substrate translocation pore; other site 416870000653 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 416870000654 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 416870000655 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 416870000656 DNA binding residues [nucleotide binding] 416870000657 putative dimer interface [polypeptide binding]; other site 416870000658 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 416870000659 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 416870000660 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 416870000661 active site 416870000662 motif I; other site 416870000663 motif II; other site 416870000664 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 416870000665 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 416870000666 Phosphoglycerate kinase; Region: PGK; pfam00162 416870000667 substrate binding site [chemical binding]; other site 416870000668 hinge regions; other site 416870000669 ADP binding site [chemical binding]; other site 416870000670 catalytic site [active] 416870000671 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 416870000672 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 416870000673 motif II; other site 416870000674 DhaKLM operon coactivator DhaQ; Provisional; Region: PRK14483 416870000675 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 416870000676 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 416870000677 dihydroxyacetone kinase, phosphoprotein-dependent, L subunit; Region: dha_L_ycgS; TIGR02365 416870000678 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3412 416870000679 Dipeptidase [Amino acid transport and metabolism]; Region: PepD; COG4690 416870000680 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 416870000681 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 416870000682 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 416870000683 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 416870000684 putative RNA binding site [nucleotide binding]; other site 416870000685 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 416870000686 Uncharacterized protein conserved in bacteria [Carbohydrate transport and metabolism]; Region: Fbp; COG3855 416870000687 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 416870000688 HI0933-like protein; Region: HI0933_like; pfam03486 416870000689 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 416870000690 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 416870000691 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 416870000692 putative substrate binding site [chemical binding]; other site 416870000693 putative ATP binding site [chemical binding]; other site 416870000694 Protein of unknown function (DUF1398); Region: DUF1398; cl11576 416870000695 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 416870000696 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 416870000697 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416870000698 Walker A/P-loop; other site 416870000699 ATP binding site [chemical binding]; other site 416870000700 Q-loop/lid; other site 416870000701 ABC transporter signature motif; other site 416870000702 Walker B; other site 416870000703 D-loop; other site 416870000704 H-loop/switch region; other site 416870000705 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 416870000706 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 416870000707 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 416870000708 Walker A/P-loop; other site 416870000709 ATP binding site [chemical binding]; other site 416870000710 Q-loop/lid; other site 416870000711 ABC transporter signature motif; other site 416870000712 Walker B; other site 416870000713 D-loop; other site 416870000714 H-loop/switch region; other site 416870000715 Uncharacterized protein/domain associated with GTPases [Function unknown]; Region: COG3597 416870000716 putative oxidoreductase; Provisional; Region: PRK10206 416870000717 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 416870000718 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 416870000719 S-ribosylhomocysteinase; Provisional; Region: PRK02260 416870000720 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 416870000721 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 416870000722 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 416870000723 active site 416870000724 catalytic tetrad [active] 416870000725 Isochorismatase family; Region: Isochorismatase; pfam00857 416870000726 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 416870000727 catalytic triad [active] 416870000728 conserved cis-peptide bond; other site 416870000729 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 416870000730 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 416870000731 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 416870000732 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 416870000733 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 416870000734 ATP cone domain; Region: ATP-cone; pfam03477 416870000735 Class III ribonucleotide reductase; Region: RNR_III; cd01675 416870000736 effector binding site; other site 416870000737 active site 416870000738 Zn binding site [ion binding]; other site 416870000739 glycine loop; other site 416870000740 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 416870000741 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 416870000742 FeS/SAM binding site; other site 416870000743 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 416870000744 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 416870000745 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13642 416870000746 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 416870000747 Walker A/P-loop; other site 416870000748 ATP binding site [chemical binding]; other site 416870000749 Q-loop/lid; other site 416870000750 ABC transporter signature motif; other site 416870000751 Walker B; other site 416870000752 D-loop; other site 416870000753 H-loop/switch region; other site 416870000754 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13643 416870000755 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 416870000756 Walker A/P-loop; other site 416870000757 ATP binding site [chemical binding]; other site 416870000758 Q-loop/lid; other site 416870000759 ABC transporter signature motif; other site 416870000760 Walker B; other site 416870000761 D-loop; other site 416870000762 H-loop/switch region; other site 416870000763 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 416870000764 active site 416870000765 Glyoxalase-like domain; Region: Glyoxalase_2; pfam12681 416870000766 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 416870000767 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 416870000768 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 416870000769 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 416870000770 putative trimer interface [polypeptide binding]; other site 416870000771 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 416870000772 putative CoA binding site [chemical binding]; other site 416870000773 putative trimer interface [polypeptide binding]; other site 416870000774 putative CoA binding site [chemical binding]; other site 416870000775 M20 Peptidase Aminoacyclase-1 YkuR-like proteins, including YkuR and Ama/HipO/HyuC proteins; Region: M20_Acy1_YkuR_like; cd05670 416870000776 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 416870000777 metal binding site [ion binding]; metal-binding site 416870000778 putative dimer interface [polypeptide binding]; other site 416870000779 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 416870000780 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 416870000781 Glucosyl transferase GtrII; Region: Glucos_trans_II; cl10304 416870000782 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 416870000783 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 416870000784 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 416870000785 RNA binding surface [nucleotide binding]; other site 416870000786 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 416870000787 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 416870000788 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 416870000789 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 416870000790 RNA binding site [nucleotide binding]; other site 416870000791 SprT homologues; Region: SprT; cl01182 416870000792 hypothetical protein; Provisional; Region: PRK04351 416870000793 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 416870000794 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 416870000795 active site 416870000796 purine riboside binding site [chemical binding]; other site 416870000797 SnoaL-like domain; Region: SnoaL_4; pfam13577 416870000798 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 416870000799 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 416870000800 DNA binding residues [nucleotide binding] 416870000801 putative dimer interface [polypeptide binding]; other site 416870000802 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 416870000803 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 416870000804 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 416870000805 hypothetical protein; Provisional; Region: PRK13667 416870000806 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 416870000807 Glycoprotease family; Region: Peptidase_M22; pfam00814 416870000808 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 416870000809 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416870000810 Coenzyme A binding pocket [chemical binding]; other site 416870000811 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416870000812 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 416870000813 Coenzyme A binding pocket [chemical binding]; other site 416870000814 UGMP family protein; Validated; Region: PRK09604 416870000815 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 416870000816 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 416870000817 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 416870000818 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 416870000819 Walker A/P-loop; other site 416870000820 ATP binding site [chemical binding]; other site 416870000821 Q-loop/lid; other site 416870000822 ABC transporter signature motif; other site 416870000823 Walker B; other site 416870000824 D-loop; other site 416870000825 H-loop/switch region; other site 416870000826 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 416870000827 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 416870000828 dimer interface [polypeptide binding]; other site 416870000829 conserved gate region; other site 416870000830 putative PBP binding loops; other site 416870000831 ABC-ATPase subunit interface; other site 416870000832 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 416870000833 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 416870000834 dimer interface [polypeptide binding]; other site 416870000835 conserved gate region; other site 416870000836 ABC-ATPase subunit interface; other site 416870000837 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 416870000838 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 416870000839 active site 416870000840 metal binding site [ion binding]; metal-binding site 416870000841 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 416870000842 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 416870000843 dimer interface [polypeptide binding]; other site 416870000844 catalytic triad [active] 416870000845 peroxidatic and resolving cysteines [active] 416870000846 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 416870000847 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 416870000848 Zn binding site [ion binding]; other site 416870000849 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 416870000850 putative substrate translocation pore; other site 416870000851 Major Facilitator Superfamily; Region: MFS_1; pfam07690 416870000852 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 416870000853 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 416870000854 Cation efflux family; Region: Cation_efflux; pfam01545 416870000855 Predicted transcriptional regulators [Transcription]; Region: COG1695 416870000856 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 416870000857 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 416870000858 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 416870000859 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416870000860 Walker A/P-loop; other site 416870000861 ATP binding site [chemical binding]; other site 416870000862 Q-loop/lid; other site 416870000863 ABC transporter signature motif; other site 416870000864 Walker B; other site 416870000865 D-loop; other site 416870000866 H-loop/switch region; other site 416870000867 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 416870000868 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 416870000869 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 416870000870 Walker A/P-loop; other site 416870000871 ATP binding site [chemical binding]; other site 416870000872 Q-loop/lid; other site 416870000873 ABC transporter signature motif; other site 416870000874 Walker B; other site 416870000875 D-loop; other site 416870000876 H-loop/switch region; other site 416870000877 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 416870000878 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 416870000879 hinge; other site 416870000880 active site 416870000881 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4443 416870000882 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 416870000883 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 416870000884 Walker A/P-loop; other site 416870000885 ATP binding site [chemical binding]; other site 416870000886 Q-loop/lid; other site 416870000887 ABC transporter signature motif; other site 416870000888 Walker B; other site 416870000889 D-loop; other site 416870000890 H-loop/switch region; other site 416870000891 H+ Antiporter protein; Region: 2A0121; TIGR00900 416870000892 BioY family; Region: BioY; pfam02632 416870000893 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 416870000894 putative deacylase active site [active] 416870000895 Predicted membrane protein [Function unknown]; Region: COG3859 416870000896 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 416870000897 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 416870000898 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 416870000899 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 416870000900 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 416870000901 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 416870000902 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870000903 acetoin reductases; Region: 23BDH; TIGR02415 416870000904 NAD(P) binding site [chemical binding]; other site 416870000905 active site 416870000906 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 416870000907 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 416870000908 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 416870000909 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 416870000910 Walker A/P-loop; other site 416870000911 ATP binding site [chemical binding]; other site 416870000912 Q-loop/lid; other site 416870000913 ABC transporter signature motif; other site 416870000914 Walker B; other site 416870000915 D-loop; other site 416870000916 H-loop/switch region; other site 416870000917 NIL domain; Region: NIL; pfam09383 416870000918 ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]; Region: AbcD; COG2011 416870000919 hypothetical protein; Provisional; Region: PRK13661 416870000920 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 416870000921 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 416870000922 Walker A/P-loop; other site 416870000923 ATP binding site [chemical binding]; other site 416870000924 Q-loop/lid; other site 416870000925 ABC transporter signature motif; other site 416870000926 Walker B; other site 416870000927 D-loop; other site 416870000928 H-loop/switch region; other site 416870000929 ATP-binding cassette cobalt transporter; Region: DUF3744; pfam12558 416870000930 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 416870000931 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 416870000932 Walker A/P-loop; other site 416870000933 ATP binding site [chemical binding]; other site 416870000934 Q-loop/lid; other site 416870000935 ABC transporter signature motif; other site 416870000936 Walker B; other site 416870000937 D-loop; other site 416870000938 H-loop/switch region; other site 416870000939 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 416870000940 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 416870000941 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 416870000942 Walker A/P-loop; other site 416870000943 ATP binding site [chemical binding]; other site 416870000944 Q-loop/lid; other site 416870000945 ABC transporter signature motif; other site 416870000946 Walker B; other site 416870000947 D-loop; other site 416870000948 H-loop/switch region; other site 416870000949 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 416870000950 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 416870000951 ABC-ATPase subunit interface; other site 416870000952 dimer interface [polypeptide binding]; other site 416870000953 putative PBP binding regions; other site 416870000954 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 416870000955 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 416870000956 ABC-ATPase subunit interface; other site 416870000957 dimer interface [polypeptide binding]; other site 416870000958 putative PBP binding regions; other site 416870000959 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 416870000960 putative ligand binding residues [chemical binding]; other site 416870000961 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 416870000962 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416870000963 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416870000964 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 416870000965 dimerization interface [polypeptide binding]; other site 416870000966 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 416870000967 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 416870000968 putative substrate translocation pore; other site 416870000969 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 416870000970 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 416870000971 active site 416870000972 catalytic tetrad [active] 416870000973 Predicted transcriptional regulators [Transcription]; Region: COG1733 416870000974 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 416870000975 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 416870000976 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 416870000977 putative metal binding site [ion binding]; other site 416870000978 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 416870000979 catalytic core [active] 416870000980 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 416870000981 peroxiredoxin; Region: AhpC; TIGR03137 416870000982 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 416870000983 dimer interface [polypeptide binding]; other site 416870000984 decamer (pentamer of dimers) interface [polypeptide binding]; other site 416870000985 catalytic triad [active] 416870000986 peroxidatic and resolving cysteines [active] 416870000987 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 416870000988 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 416870000989 catalytic residue [active] 416870000990 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 416870000991 catalytic residues [active] 416870000992 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 416870000993 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 416870000994 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 416870000995 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 416870000996 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 416870000997 recombination protein RecR; Reviewed; Region: recR; PRK00076 416870000998 RecR protein; Region: RecR; pfam02132 416870000999 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 416870001000 putative active site [active] 416870001001 putative metal-binding site [ion binding]; other site 416870001002 tetramer interface [polypeptide binding]; other site 416870001003 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 416870001004 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 416870001005 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 416870001006 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 416870001007 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 416870001008 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 416870001009 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 416870001010 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 416870001011 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 416870001012 peptide binding site [polypeptide binding]; other site 416870001013 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 416870001014 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 416870001015 dimer interface [polypeptide binding]; other site 416870001016 conserved gate region; other site 416870001017 putative PBP binding loops; other site 416870001018 ABC-ATPase subunit interface; other site 416870001019 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 416870001020 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 416870001021 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 416870001022 dimer interface [polypeptide binding]; other site 416870001023 conserved gate region; other site 416870001024 putative PBP binding loops; other site 416870001025 ABC-ATPase subunit interface; other site 416870001026 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 416870001027 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 416870001028 Walker A/P-loop; other site 416870001029 ATP binding site [chemical binding]; other site 416870001030 Q-loop/lid; other site 416870001031 ABC transporter signature motif; other site 416870001032 Walker B; other site 416870001033 D-loop; other site 416870001034 H-loop/switch region; other site 416870001035 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 416870001036 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 416870001037 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 416870001038 Walker A/P-loop; other site 416870001039 ATP binding site [chemical binding]; other site 416870001040 Q-loop/lid; other site 416870001041 ABC transporter signature motif; other site 416870001042 Walker B; other site 416870001043 D-loop; other site 416870001044 H-loop/switch region; other site 416870001045 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 416870001046 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 416870001047 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 416870001048 G1 box; other site 416870001049 putative GEF interaction site [polypeptide binding]; other site 416870001050 GTP/Mg2+ binding site [chemical binding]; other site 416870001051 Switch I region; other site 416870001052 G2 box; other site 416870001053 G3 box; other site 416870001054 Switch II region; other site 416870001055 G4 box; other site 416870001056 G5 box; other site 416870001057 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 416870001058 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 416870001059 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 416870001060 ATP binding site [chemical binding]; other site 416870001061 Mg++ binding site [ion binding]; other site 416870001062 motif III; other site 416870001063 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 416870001064 nucleotide binding region [chemical binding]; other site 416870001065 ATP-binding site [chemical binding]; other site 416870001066 GTPase Era; Reviewed; Region: era; PRK00089 416870001067 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 416870001068 G1 box; other site 416870001069 GTP/Mg2+ binding site [chemical binding]; other site 416870001070 Switch I region; other site 416870001071 G2 box; other site 416870001072 Switch II region; other site 416870001073 G3 box; other site 416870001074 G4 box; other site 416870001075 G5 box; other site 416870001076 KH domain; Region: KH_2; pfam07650 416870001077 asparagine synthetase B; Provisional; Region: asnB; PRK09431 416870001078 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 416870001079 dimer interface [polypeptide binding]; other site 416870001080 active site 416870001081 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 416870001082 Ligand Binding Site [chemical binding]; other site 416870001083 Molecular Tunnel; other site 416870001084 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 416870001085 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 416870001086 DNA binding site [nucleotide binding] 416870001087 catalytic residue [active] 416870001088 H2TH interface [polypeptide binding]; other site 416870001089 putative catalytic residues [active] 416870001090 turnover-facilitating residue; other site 416870001091 intercalation triad [nucleotide binding]; other site 416870001092 8OG recognition residue [nucleotide binding]; other site 416870001093 putative reading head residues; other site 416870001094 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 416870001095 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 416870001096 recombinase A; Provisional; Region: recA; PRK09354 416870001097 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 416870001098 hexamer interface [polypeptide binding]; other site 416870001099 Walker A motif; other site 416870001100 ATP binding site [chemical binding]; other site 416870001101 Walker B motif; other site 416870001102 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 416870001103 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 416870001104 Protein of unknown function (DUF964); Region: DUF964; cl01483 416870001105 Uncharacterized protein conserved in bacteria (DUF2129); Region: DUF2129; pfam09902 416870001106 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 416870001107 putative active site [active] 416870001108 putative metal binding residues [ion binding]; other site 416870001109 signature motif; other site 416870001110 putative triphosphate binding site [ion binding]; other site 416870001111 Protein of unknown function (DUF817); Region: DUF817; pfam05675 416870001112 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 416870001113 synthetase active site [active] 416870001114 NTP binding site [chemical binding]; other site 416870001115 metal binding site [ion binding]; metal-binding site 416870001116 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04885 416870001117 ATP-NAD kinase; Region: NAD_kinase; pfam01513 416870001118 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 416870001119 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 416870001120 active site 416870001121 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 416870001122 active site 416870001123 lysine transporter; Provisional; Region: PRK10836 416870001124 Predicted flavoprotein [General function prediction only]; Region: COG0431 416870001125 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 416870001126 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 416870001127 ApbE family; Region: ApbE; pfam02424 416870001128 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 416870001129 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 416870001130 dimer interface [polypeptide binding]; other site 416870001131 putative anticodon binding site; other site 416870001132 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 416870001133 motif 1; other site 416870001134 active site 416870001135 motif 2; other site 416870001136 motif 3; other site 416870001137 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416870001138 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 416870001139 LysR substrate binding domain; Region: LysR_substrate; pfam03466 416870001140 dimerization interface [polypeptide binding]; other site 416870001141 Conserved hypothetical protein 698; Region: Cons_hypoth698; pfam03601 416870001142 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 416870001143 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 416870001144 tetramer (dimer of dimers) interface [polypeptide binding]; other site 416870001145 NAD binding site [chemical binding]; other site 416870001146 dimer interface [polypeptide binding]; other site 416870001147 substrate binding site [chemical binding]; other site 416870001148 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416870001149 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416870001150 LysR substrate binding domain; Region: LysR_substrate; pfam03466 416870001151 dimerization interface [polypeptide binding]; other site 416870001152 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 416870001153 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 416870001154 gating phenylalanine in ion channel; other site 416870001155 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 416870001156 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 416870001157 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 416870001158 Ligand Binding Site [chemical binding]; other site 416870001159 Acyl carrier protein phosphodiesterase [Lipid metabolism]; Region: AcpD; COG1182 416870001160 OsmC-like protein; Region: OsmC; cl00767 416870001161 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 416870001162 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 416870001163 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 416870001164 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 416870001165 active site 416870001166 HIGH motif; other site 416870001167 dimer interface [polypeptide binding]; other site 416870001168 KMSKS motif; other site 416870001169 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 416870001170 RNA binding surface [nucleotide binding]; other site 416870001171 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 416870001172 Transglycosylase; Region: Transgly; pfam00912 416870001173 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 416870001174 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 416870001175 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 416870001176 oligomer interface [polypeptide binding]; other site 416870001177 active site 416870001178 metal binding site [ion binding]; metal-binding site 416870001179 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 416870001180 catalytic residues [active] 416870001181 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 416870001182 putative tRNA-binding site [nucleotide binding]; other site 416870001183 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 416870001184 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 416870001185 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 416870001186 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 416870001187 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 416870001188 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 416870001189 dimer interface [polypeptide binding]; other site 416870001190 ssDNA binding site [nucleotide binding]; other site 416870001191 tetramer (dimer of dimers) interface [polypeptide binding]; other site 416870001192 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 416870001193 oligomerisation interface [polypeptide binding]; other site 416870001194 mobile loop; other site 416870001195 roof hairpin; other site 416870001196 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 416870001197 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 416870001198 ring oligomerisation interface [polypeptide binding]; other site 416870001199 ATP/Mg binding site [chemical binding]; other site 416870001200 stacking interactions; other site 416870001201 hinge regions; other site 416870001202 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 416870001203 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 416870001204 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 416870001205 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 416870001206 putative active site [active] 416870001207 heme pocket [chemical binding]; other site 416870001208 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 416870001209 dimer interface [polypeptide binding]; other site 416870001210 phosphorylation site [posttranslational modification] 416870001211 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 416870001212 ATP binding site [chemical binding]; other site 416870001213 Mg2+ binding site [ion binding]; other site 416870001214 G-X-G motif; other site 416870001215 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 416870001216 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 416870001217 active site 416870001218 phosphorylation site [posttranslational modification] 416870001219 intermolecular recognition site; other site 416870001220 dimerization interface [polypeptide binding]; other site 416870001221 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 416870001222 DNA binding site [nucleotide binding] 416870001223 thymidylate kinase; Validated; Region: tmk; PRK00698 416870001224 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 416870001225 TMP-binding site; other site 416870001226 ATP-binding site [chemical binding]; other site 416870001227 DNA polymerase III subunit delta'; Validated; Region: PRK07276 416870001228 DNA polymerase III subunit delta'; Validated; Region: PRK08485 416870001229 PSP1 C-terminal conserved region; Region: PSP1; cl00770 416870001230 Regulator of replication initiation timing [Replication, recombination, and repair]; Region: COG4467 416870001231 Predicted methyltransferases [General function prediction only]; Region: COG0313 416870001232 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 416870001233 putative SAM binding site [chemical binding]; other site 416870001234 putative homodimer interface [polypeptide binding]; other site 416870001235 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 416870001236 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 416870001237 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 416870001238 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416870001239 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 416870001240 Walker A/P-loop; other site 416870001241 ATP binding site [chemical binding]; other site 416870001242 Q-loop/lid; other site 416870001243 ABC transporter signature motif; other site 416870001244 Walker B; other site 416870001245 D-loop; other site 416870001246 H-loop/switch region; other site 416870001247 MarR family; Region: MarR_2; pfam12802 416870001248 mevalonate kinase; Region: mevalon_kin; TIGR00549 416870001249 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 416870001250 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 416870001251 Mevalonate pyrophosphate decarboxylase [Lipid metabolism]; Region: MVD1; COG3407 416870001252 diphosphomevalonate decarboxylase; Region: PLN02407 416870001253 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 416870001254 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 416870001255 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 416870001256 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 416870001257 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 416870001258 homotetramer interface [polypeptide binding]; other site 416870001259 FMN binding site [chemical binding]; other site 416870001260 homodimer contacts [polypeptide binding]; other site 416870001261 putative active site [active] 416870001262 putative substrate binding site [chemical binding]; other site 416870001263 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 416870001264 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 416870001265 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 416870001266 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 416870001267 Carbon starvation protein CstA; Region: CstA; pfam02554 416870001268 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 416870001269 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 416870001270 Predicted transcriptional regulator [Transcription]; Region: COG2378 416870001271 HTH domain; Region: HTH_11; pfam08279 416870001272 WYL domain; Region: WYL; pfam13280 416870001273 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 416870001274 DEAD-like helicases superfamily; Region: DEXDc; smart00487 416870001275 ATP binding site [chemical binding]; other site 416870001276 Mg++ binding site [ion binding]; other site 416870001277 motif III; other site 416870001278 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 416870001279 nucleotide binding region [chemical binding]; other site 416870001280 ATP-binding site [chemical binding]; other site 416870001281 Uncharacterized conserved protein [Function unknown]; Region: COG1434 416870001282 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 416870001283 putative active site [active] 416870001284 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 416870001285 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 416870001286 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 416870001287 putative active site [active] 416870001288 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 416870001289 active site 416870001290 P-loop; other site 416870001291 phosphorylation site [posttranslational modification] 416870001292 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 416870001293 active site 416870001294 methionine cluster; other site 416870001295 phosphorylation site [posttranslational modification] 416870001296 metal binding site [ion binding]; metal-binding site 416870001297 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 416870001298 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 416870001299 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 416870001300 putative active site [active] 416870001301 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 416870001302 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 416870001303 6-phospho-beta-glucosidase; Reviewed; Region: celA; PRK09589 416870001304 beta-galactosidase; Region: BGL; TIGR03356 416870001305 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 416870001306 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 416870001307 nucleotide binding pocket [chemical binding]; other site 416870001308 K-X-D-G motif; other site 416870001309 catalytic site [active] 416870001310 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 416870001311 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 416870001312 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 416870001313 Dimer interface [polypeptide binding]; other site 416870001314 BRCT sequence motif; other site 416870001315 putative lipid kinase; Reviewed; Region: PRK13055 416870001316 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 416870001317 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 416870001318 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 416870001319 Walker A/P-loop; other site 416870001320 ATP binding site [chemical binding]; other site 416870001321 Q-loop/lid; other site 416870001322 ABC transporter signature motif; other site 416870001323 Walker B; other site 416870001324 D-loop; other site 416870001325 H-loop/switch region; other site 416870001326 TOBE domain; Region: TOBE_2; pfam08402 416870001327 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 416870001328 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 416870001329 dimer interface [polypeptide binding]; other site 416870001330 PYR/PP interface [polypeptide binding]; other site 416870001331 TPP binding site [chemical binding]; other site 416870001332 substrate binding site [chemical binding]; other site 416870001333 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 416870001334 Domain of unknown function; Region: EKR; smart00890 416870001335 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 416870001336 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 416870001337 TPP-binding site [chemical binding]; other site 416870001338 dimer interface [polypeptide binding]; other site 416870001339 Uncharacterized conserved protein [Function unknown]; Region: COG1624 416870001340 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 416870001341 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 416870001342 YbbR-like protein; Region: YbbR; pfam07949 416870001343 YbbR-like protein; Region: YbbR; pfam07949 416870001344 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 416870001345 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 416870001346 active site 416870001347 substrate binding site [chemical binding]; other site 416870001348 metal binding site [ion binding]; metal-binding site 416870001349 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 416870001350 DNA-binding site [nucleotide binding]; DNA binding site 416870001351 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 416870001352 UTRA domain; Region: UTRA; pfam07702 416870001353 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 416870001354 HPr interaction site; other site 416870001355 glycerol kinase (GK) interaction site [polypeptide binding]; other site 416870001356 active site 416870001357 phosphorylation site [posttranslational modification] 416870001358 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 416870001359 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 416870001360 active site turn [active] 416870001361 phosphorylation site [posttranslational modification] 416870001362 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 416870001363 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 416870001364 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 416870001365 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 416870001366 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 416870001367 beta-phosphoglucomutase; Region: bPGM; TIGR01990 416870001368 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 416870001369 motif II; other site 416870001370 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 416870001371 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 416870001372 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 416870001373 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 416870001374 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416870001375 Coenzyme A binding pocket [chemical binding]; other site 416870001376 Transcriptional regulator [Transcription]; Region: LytR; COG1316 416870001377 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 416870001378 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 416870001379 dimerization interface 3.5A [polypeptide binding]; other site 416870001380 active site 416870001381 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 416870001382 dimer interface [polypeptide binding]; other site 416870001383 substrate binding site [chemical binding]; other site 416870001384 ATP binding site [chemical binding]; other site 416870001385 Predicted membrane protein [Function unknown]; Region: COG4720 416870001386 hypothetical protein; Provisional; Region: PRK13690 416870001387 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 416870001388 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 416870001389 catalytic residue [active] 416870001390 CTP synthetase; Validated; Region: pyrG; PRK05380 416870001391 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 416870001392 Catalytic site [active] 416870001393 active site 416870001394 UTP binding site [chemical binding]; other site 416870001395 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 416870001396 active site 416870001397 putative oxyanion hole; other site 416870001398 catalytic triad [active] 416870001399 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 416870001400 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 416870001401 NAD(P) binding site [chemical binding]; other site 416870001402 LDH/MDH dimer interface [polypeptide binding]; other site 416870001403 substrate binding site [chemical binding]; other site 416870001404 Predicted membrane protein [Function unknown]; Region: COG4420 416870001405 Protein of unknown function (DUF2929); Region: DUF2929; pfam11151 416870001406 Nucleoside 2-deoxyribosyltransferase [Nucleotide transport and metabolism]; Region: COG3613 416870001407 Possible lysine decarboxylase; Region: Lysine_decarbox; pfam03641 416870001408 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 416870001409 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 416870001410 Substrate-binding site [chemical binding]; other site 416870001411 Substrate specificity [chemical binding]; other site 416870001412 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 416870001413 putative active site [active] 416870001414 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 416870001415 putative active site [active] 416870001416 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK07279 416870001417 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 416870001418 active site 416870001419 PHP Thumb interface [polypeptide binding]; other site 416870001420 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 416870001421 generic binding surface II; other site 416870001422 generic binding surface I; other site 416870001423 Transcriptional regulators [Transcription]; Region: PurR; COG1609 416870001424 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 416870001425 DNA binding site [nucleotide binding] 416870001426 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 416870001427 dimerization interface [polypeptide binding]; other site 416870001428 ligand binding site [chemical binding]; other site 416870001429 RDD family; Region: RDD; pfam06271 416870001430 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 416870001431 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 416870001432 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 416870001433 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 416870001434 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 416870001435 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 416870001436 dimer interface [polypeptide binding]; other site 416870001437 conserved gate region; other site 416870001438 putative PBP binding loops; other site 416870001439 ABC-ATPase subunit interface; other site 416870001440 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 416870001441 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 416870001442 dimer interface [polypeptide binding]; other site 416870001443 conserved gate region; other site 416870001444 putative PBP binding loops; other site 416870001445 ABC-ATPase subunit interface; other site 416870001446 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 416870001447 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 416870001448 EDD domain protein, DegV family; Region: DegV; TIGR00762 416870001449 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 416870001450 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 416870001451 active site 416870001452 catalytic triad [active] 416870001453 oxyanion hole [active] 416870001454 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 416870001455 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 416870001456 Uncharacterized protein conserved in bacteria (DUF2140); Region: DUF2140; cl11548 416870001457 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 416870001458 IHF dimer interface [polypeptide binding]; other site 416870001459 IHF - DNA interface [nucleotide binding]; other site 416870001460 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 416870001461 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416870001462 Coenzyme A binding pocket [chemical binding]; other site 416870001463 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 416870001464 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 416870001465 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 416870001466 DNA binding site [nucleotide binding] 416870001467 active site 416870001468 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 416870001469 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 416870001470 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416870001471 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416870001472 N-acetyltransferase; Region: Acetyltransf_2; cl00949 416870001473 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 416870001474 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 416870001475 Walker A/P-loop; other site 416870001476 ATP binding site [chemical binding]; other site 416870001477 Q-loop/lid; other site 416870001478 ABC transporter signature motif; other site 416870001479 Walker B; other site 416870001480 D-loop; other site 416870001481 H-loop/switch region; other site 416870001482 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 416870001483 ABC-2 type transporter; Region: ABC2_membrane; cl17235 416870001484 LytTr DNA-binding domain; Region: LytTR; pfam04397 416870001485 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 416870001486 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 416870001487 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 416870001488 catalytic residue [active] 416870001489 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 416870001490 NlpC/P60 family; Region: NLPC_P60; cl17555 416870001491 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 416870001492 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 416870001493 peptide binding site [polypeptide binding]; other site 416870001494 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 416870001495 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 416870001496 dimer interface [polypeptide binding]; other site 416870001497 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416870001498 catalytic residue [active] 416870001499 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 416870001500 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 416870001501 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 416870001502 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 416870001503 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 416870001504 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 416870001505 Transglycosylase; Region: Transgly; pfam00912 416870001506 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 416870001507 Holliday junction-specific endonuclease; Reviewed; Region: recU; PRK02234 416870001508 hypothetical protein; Provisional; Region: PRK13660 416870001509 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 416870001510 ArsC family; Region: ArsC; pfam03960 416870001511 putative catalytic residues [active] 416870001512 thiol/disulfide switch; other site 416870001513 hypothetical protein; Provisional; Region: PRK04387 416870001514 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 416870001515 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 416870001516 active site 416870001517 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 416870001518 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 416870001519 hinge; other site 416870001520 active site 416870001521 trigger factor; Provisional; Region: tig; PRK01490 416870001522 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 416870001523 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 416870001524 DNA primase, catalytic core; Region: dnaG; TIGR01391 416870001525 CHC2 zinc finger; Region: zf-CHC2; pfam01807 416870001526 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 416870001527 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 416870001528 active site 416870001529 metal binding site [ion binding]; metal-binding site 416870001530 interdomain interaction site; other site 416870001531 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 416870001532 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 416870001533 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 416870001534 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 416870001535 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 416870001536 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 416870001537 DNA binding residues [nucleotide binding] 416870001538 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 416870001539 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 416870001540 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 416870001541 putative active site [active] 416870001542 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 416870001543 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 416870001544 putative substrate translocation pore; other site 416870001545 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 416870001546 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 416870001547 Double zinc ribbon; Region: DZR; pfam12773 416870001548 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 416870001549 Double zinc ribbon; Region: DZR; pfam12773 416870001550 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 416870001551 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 416870001552 Walker A motif; other site 416870001553 ATP binding site [chemical binding]; other site 416870001554 Walker B motif; other site 416870001555 arginine finger; other site 416870001556 UvrB/uvrC motif; Region: UVR; pfam02151 416870001557 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 416870001558 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 416870001559 Walker A motif; other site 416870001560 ATP binding site [chemical binding]; other site 416870001561 Walker B motif; other site 416870001562 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 416870001563 Predicted transcriptional regulator [Transcription]; Region: COG1959 416870001564 Transcriptional regulator; Region: Rrf2; pfam02082 416870001565 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 416870001566 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 416870001567 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 416870001568 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 416870001569 active site 416870001570 catalytic residues [active] 416870001571 metal binding site [ion binding]; metal-binding site 416870001572 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 416870001573 putative active site [active] 416870001574 Ap4A binding site [chemical binding]; other site 416870001575 nudix motif; other site 416870001576 putative metal binding site [ion binding]; other site 416870001577 excinuclease ABC subunit B; Provisional; Region: PRK05298 416870001578 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 416870001579 ATP binding site [chemical binding]; other site 416870001580 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 416870001581 nucleotide binding region [chemical binding]; other site 416870001582 ATP-binding site [chemical binding]; other site 416870001583 Ultra-violet resistance protein B; Region: UvrB; pfam12344 416870001584 UvrB/uvrC motif; Region: UVR; pfam02151 416870001585 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 416870001586 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 416870001587 substrate binding pocket [chemical binding]; other site 416870001588 membrane-bound complex binding site; other site 416870001589 hinge residues; other site 416870001590 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 416870001591 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 416870001592 metal binding site [ion binding]; metal-binding site 416870001593 dimer interface [polypeptide binding]; other site 416870001594 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 416870001595 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06079 416870001596 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 416870001597 NAD binding site [chemical binding]; other site 416870001598 homotetramer interface [polypeptide binding]; other site 416870001599 homodimer interface [polypeptide binding]; other site 416870001600 substrate binding site [chemical binding]; other site 416870001601 active site 416870001602 OxaA-like protein precursor; Provisional; Region: PRK02463 416870001603 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 416870001604 Eukaryotic phosphomannomutase; Region: PMM; cl17107 416870001605 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 416870001606 Predicted membrane protein [Function unknown]; Region: COG4684 416870001607 phosphopantothenoylcysteine decarboxylase, streptococcal; Region: coaC_strep; TIGR02113 416870001608 Flavoprotein; Region: Flavoprotein; pfam02441 416870001609 phosphopantothenate--cysteine ligase; Validated; Region: PRK06732 416870001610 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 416870001611 active site 1 [active] 416870001612 dimer interface [polypeptide binding]; other site 416870001613 hexamer interface [polypeptide binding]; other site 416870001614 active site 2 [active] 416870001615 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 416870001616 ATPase, P-type (transporting), HAD superfamily, subfamily IC; Region: ATPase_P-type; TIGR01494 416870001617 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 416870001618 motif II; other site 416870001619 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 416870001620 putative transposase OrfB; Reviewed; Region: PHA02517 416870001621 HTH-like domain; Region: HTH_21; pfam13276 416870001622 Integrase core domain; Region: rve; pfam00665 416870001623 Integrase core domain; Region: rve_3; pfam13683 416870001624 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416870001625 Transposase; Region: HTH_Tnp_1; pfam01527 416870001626 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 416870001627 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 416870001628 active site 416870001629 Uncharacterized conserved protein [Function unknown]; Region: COG1359 416870001630 Transposase, Mutator family; Region: Transposase_mut; pfam00872 416870001631 MULE transposase domain; Region: MULE; pfam10551 416870001632 thymidine kinase; Provisional; Region: PRK04296 416870001633 peptide chain release factor 1; Validated; Region: prfA; PRK00591 416870001634 This domain is found in peptide chain release factors; Region: PCRF; smart00937 416870001635 RF-1 domain; Region: RF-1; pfam00472 416870001636 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 416870001637 dimer interface [polypeptide binding]; other site 416870001638 FMN binding site [chemical binding]; other site 416870001639 NADPH bind site [chemical binding]; other site 416870001640 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 416870001641 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 416870001642 S-adenosylmethionine binding site [chemical binding]; other site 416870001643 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416870001644 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 416870001645 Coenzyme A binding pocket [chemical binding]; other site 416870001646 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 416870001647 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 416870001648 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 416870001649 dimer interface [polypeptide binding]; other site 416870001650 active site 416870001651 glycine-pyridoxal phosphate binding site [chemical binding]; other site 416870001652 folate binding site [chemical binding]; other site 416870001653 Lysozyme-like; Region: Lysozyme_like; pfam13702 416870001654 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 416870001655 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 416870001656 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 416870001657 catalytic residue [active] 416870001658 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_3; cd12174 416870001659 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 416870001660 putative ligand binding site [chemical binding]; other site 416870001661 putative NAD binding site [chemical binding]; other site 416870001662 putative catalytic site [active] 416870001663 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 416870001664 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 416870001665 phosphoserine phosphatase SerB; Region: serB; TIGR00338 416870001666 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 416870001667 motif II; other site 416870001668 acylphosphatase; Provisional; Region: PRK14434 416870001669 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 416870001670 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 416870001671 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 416870001672 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 416870001673 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 416870001674 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 416870001675 DNA binding residues [nucleotide binding] 416870001676 putative dimer interface [polypeptide binding]; other site 416870001677 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 416870001678 dimer interface [polypeptide binding]; other site 416870001679 flavodoxin; Validated; Region: PRK07308 416870001680 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 416870001681 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 416870001682 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 416870001683 active site 416870001684 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 416870001685 Predicted membrane protein [Function unknown]; Region: COG2246 416870001686 GtrA-like protein; Region: GtrA; pfam04138 416870001687 Protein of unknown function (DUF3272); Region: DUF3272; pfam11676 416870001688 HPr kinase/phosphorylase; Provisional; Region: PRK05428 416870001689 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 416870001690 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 416870001691 Hpr binding site; other site 416870001692 active site 416870001693 homohexamer subunit interaction site [polypeptide binding]; other site 416870001694 Prolipoprotein diacylglyceryl transferase; Region: LGT; pfam01790 416870001695 Uncharacterized protein containing a divergent version of the methyl-accepting chemotaxis-like domain [General function prediction only]; Region: COG4768 416870001696 YtxH-like protein; Region: YtxH; cl02079 416870001697 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 416870001698 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 416870001699 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 416870001700 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 416870001701 Protein of unknown function (DUF3042); Region: DUF3042; pfam11240 416870001702 Uncharacterized conserved protein [Function unknown]; Region: COG1284 416870001703 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 416870001704 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 416870001705 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 416870001706 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 416870001707 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 416870001708 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 416870001709 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 416870001710 Int/Topo IB signature motif; other site 416870001711 conserved hypothetical integral membrane protein; Region: TIGR03766 416870001712 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 416870001713 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 416870001714 Ligand binding site; other site 416870001715 Putative Catalytic site; other site 416870001716 DXD motif; other site 416870001717 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 416870001718 pentamer interface [polypeptide binding]; other site 416870001719 dodecaamer interface [polypeptide binding]; other site 416870001720 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 416870001721 non-specific DNA binding site [nucleotide binding]; other site 416870001722 salt bridge; other site 416870001723 sequence-specific DNA binding site [nucleotide binding]; other site 416870001724 Lactococcus bacteriophage repressor; Region: Lac_bphage_repr; pfam06543 416870001725 ribonuclease Z; Region: RNase_Z; TIGR02651 416870001726 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 416870001727 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870001728 NAD(P) binding site [chemical binding]; other site 416870001729 active site 416870001730 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 416870001731 DHH family; Region: DHH; pfam01368 416870001732 DHHA1 domain; Region: DHHA1; pfam02272 416870001733 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4199 416870001734 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 416870001735 active site 416870001736 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; pfam05066 416870001737 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 416870001738 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 416870001739 dimerization interface [polypeptide binding]; other site 416870001740 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 416870001741 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 416870001742 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 416870001743 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416870001744 Helix-turn-helix domain; Region: HTH_28; pfam13518 416870001745 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416870001746 Homeodomain-like domain; Region: HTH_23; cl17451 416870001747 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416870001748 Transposase; Region: HTH_Tnp_1; pfam01527 416870001749 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 416870001750 HTH-like domain; Region: HTH_21; pfam13276 416870001751 Integrase core domain; Region: rve; pfam00665 416870001752 Integrase core domain; Region: rve_3; pfam13683 416870001753 Transcriptional repressor of class III stress genes [Transcription]; Region: CtsR; COG4463 416870001754 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 416870001755 Clp amino terminal domain; Region: Clp_N; pfam02861 416870001756 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 416870001757 Walker A motif; other site 416870001758 ATP binding site [chemical binding]; other site 416870001759 Walker B motif; other site 416870001760 arginine finger; other site 416870001761 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 416870001762 Walker A motif; other site 416870001763 ATP binding site [chemical binding]; other site 416870001764 Walker B motif; other site 416870001765 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 416870001766 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 416870001767 30S subunit binding site; other site 416870001768 enolase; Provisional; Region: eno; PRK00077 416870001769 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 416870001770 dimer interface [polypeptide binding]; other site 416870001771 metal binding site [ion binding]; metal-binding site 416870001772 substrate binding pocket [chemical binding]; other site 416870001773 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 416870001774 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 416870001775 active site 416870001776 DNA binding site [nucleotide binding] 416870001777 Int/Topo IB signature motif; other site 416870001778 putative transposase OrfB; Reviewed; Region: PHA02517 416870001779 HTH-like domain; Region: HTH_21; pfam13276 416870001780 Integrase core domain; Region: rve; pfam00665 416870001781 Integrase core domain; Region: rve_3; pfam13683 416870001782 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416870001783 Transposase; Region: HTH_Tnp_1; pfam01527 416870001784 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 416870001785 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 416870001786 Walker A/P-loop; other site 416870001787 ATP binding site [chemical binding]; other site 416870001788 Q-loop/lid; other site 416870001789 ABC transporter signature motif; other site 416870001790 Walker B; other site 416870001791 D-loop; other site 416870001792 H-loop/switch region; other site 416870001793 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 416870001794 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 416870001795 FtsX-like permease family; Region: FtsX; pfam02687 416870001796 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 416870001797 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 416870001798 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 416870001799 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 416870001800 acyl-activating enzyme (AAE) consensus motif; other site 416870001801 acyl-activating enzyme (AAE) consensus motif; other site 416870001802 AMP binding site [chemical binding]; other site 416870001803 active site 416870001804 CoA binding site [chemical binding]; other site 416870001805 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 416870001806 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 416870001807 Cl binding site [ion binding]; other site 416870001808 oligomer interface [polypeptide binding]; other site 416870001809 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 416870001810 Pyruvate formate lyase 1; Region: PFL1; cd01678 416870001811 coenzyme A binding site [chemical binding]; other site 416870001812 active site 416870001813 catalytic residues [active] 416870001814 glycine loop; other site 416870001815 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 416870001816 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 416870001817 CoA-binding site [chemical binding]; other site 416870001818 ATP-binding [chemical binding]; other site 416870001819 drug efflux system protein MdtG; Provisional; Region: PRK09874 416870001820 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 416870001821 putative substrate translocation pore; other site 416870001822 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 416870001823 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 416870001824 pyruvate carboxylase; Reviewed; Region: PRK12999 416870001825 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 416870001826 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 416870001827 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 416870001828 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 416870001829 active site 416870001830 catalytic residues [active] 416870001831 metal binding site [ion binding]; metal-binding site 416870001832 homodimer binding site [polypeptide binding]; other site 416870001833 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 416870001834 carboxyltransferase (CT) interaction site; other site 416870001835 biotinylation site [posttranslational modification]; other site 416870001836 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 416870001837 dimer interface [polypeptide binding]; other site 416870001838 Citrate synthase; Region: Citrate_synt; pfam00285 416870001839 active site 416870001840 citrylCoA binding site [chemical binding]; other site 416870001841 oxalacetate/citrate binding site [chemical binding]; other site 416870001842 coenzyme A binding site [chemical binding]; other site 416870001843 catalytic triad [active] 416870001844 aconitate hydratase; Validated; Region: PRK09277 416870001845 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 416870001846 substrate binding site [chemical binding]; other site 416870001847 ligand binding site [chemical binding]; other site 416870001848 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 416870001849 substrate binding site [chemical binding]; other site 416870001850 Isocitrate dehydrogenases [Energy production and conversion]; Region: Icd; COG0538 416870001851 isocitrate dehydrogenase; Validated; Region: PRK07362 416870001852 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 416870001853 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 416870001854 oligomer interface [polypeptide binding]; other site 416870001855 active site residues [active] 416870001856 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 416870001857 ArsC family; Region: ArsC; pfam03960 416870001858 putative catalytic residues [active] 416870001859 thiol/disulfide switch; other site 416870001860 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 416870001861 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 416870001862 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 416870001863 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 416870001864 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 416870001865 motif II; other site 416870001866 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 416870001867 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 416870001868 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 416870001869 poly-beta-1,6 N-acetyl-D-glucosamine synthase; Region: PgaC_IcaA; TIGR03937 416870001870 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 416870001871 DXD motif; other site 416870001872 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 416870001873 putative transposase OrfB; Reviewed; Region: PHA02517 416870001874 HTH-like domain; Region: HTH_21; pfam13276 416870001875 Integrase core domain; Region: rve; pfam00665 416870001876 Integrase core domain; Region: rve_3; pfam13683 416870001877 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416870001878 Transposase; Region: HTH_Tnp_1; pfam01527 416870001879 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 416870001880 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 416870001881 Predicted acetyltransferase [General function prediction only]; Region: COG2388 416870001882 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 416870001883 HTH-like domain; Region: HTH_21; pfam13276 416870001884 Integrase core domain; Region: rve; pfam00665 416870001885 Integrase core domain; Region: rve_3; pfam13683 416870001886 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416870001887 Transposase; Region: HTH_Tnp_1; pfam01527 416870001888 Integrase core domain; Region: rve; pfam00665 416870001889 Transposase; Region: HTH_Tnp_1; pfam01527 416870001890 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416870001891 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 416870001892 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 416870001893 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 416870001894 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 416870001895 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 416870001896 ATP binding site [chemical binding]; other site 416870001897 putative Mg++ binding site [ion binding]; other site 416870001898 HsdM N-terminal domain; Region: HsdM_N; pfam12161 416870001899 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 416870001900 Methyltransferase domain; Region: Methyltransf_26; pfam13659 416870001901 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 416870001902 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 416870001903 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 416870001904 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 416870001905 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 416870001906 Cl binding site [ion binding]; other site 416870001907 oligomer interface [polypeptide binding]; other site 416870001908 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 416870001909 putative substrate binding pocket [chemical binding]; other site 416870001910 AC domain interface; other site 416870001911 catalytic triad [active] 416870001912 AB domain interface; other site 416870001913 interchain disulfide; other site 416870001914 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 416870001915 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 416870001916 metal binding site [ion binding]; metal-binding site 416870001917 dimer interface [polypeptide binding]; other site 416870001918 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 416870001919 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 416870001920 putative substrate translocation pore; other site 416870001921 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416870001922 Coenzyme A binding pocket [chemical binding]; other site 416870001923 Lactococcin-like family; Region: Lactococcin; pfam04369 416870001924 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK12323 416870001925 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 416870001926 Integrase core domain; Region: rve; pfam00665 416870001927 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416870001928 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 416870001929 Coenzyme A binding pocket [chemical binding]; other site 416870001930 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416870001931 Transposase; Region: HTH_Tnp_1; pfam01527 416870001932 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 416870001933 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 416870001934 non-specific DNA binding site [nucleotide binding]; other site 416870001935 salt bridge; other site 416870001936 sequence-specific DNA binding site [nucleotide binding]; other site 416870001937 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 416870001938 Integrase core domain; Region: rve; pfam00665 416870001939 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 416870001940 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 416870001941 Walker A motif; other site 416870001942 ATP binding site [chemical binding]; other site 416870001943 Walker B motif; other site 416870001944 arginine finger; other site 416870001945 putative transposase OrfB; Reviewed; Region: PHA02517 416870001946 HTH-like domain; Region: HTH_21; pfam13276 416870001947 Integrase core domain; Region: rve; pfam00665 416870001948 Integrase core domain; Region: rve_3; pfam13683 416870001949 Lactococcin-like family; Region: Lactococcin; pfam04369 416870001950 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 416870001951 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 416870001952 Soluble P-type ATPase [General function prediction only]; Region: COG4087 416870001953 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 416870001954 metal-binding site [ion binding] 416870001955 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 416870001956 dinuclear metal binding motif [ion binding]; other site 416870001957 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 416870001958 CRP/FNR family transcriptional regulator; Provisional; Region: PRK13918 416870001959 ligand binding site [chemical binding]; other site 416870001960 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 416870001961 putative switch regulator; other site 416870001962 non-specific DNA interactions [nucleotide binding]; other site 416870001963 DNA binding site [nucleotide binding] 416870001964 sequence specific DNA binding site [nucleotide binding]; other site 416870001965 putative cAMP binding site [chemical binding]; other site 416870001966 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 416870001967 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 416870001968 Walker A/P-loop; other site 416870001969 ATP binding site [chemical binding]; other site 416870001970 Q-loop/lid; other site 416870001971 ABC transporter signature motif; other site 416870001972 Walker B; other site 416870001973 D-loop; other site 416870001974 H-loop/switch region; other site 416870001975 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 416870001976 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 416870001977 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 416870001978 Walker A/P-loop; other site 416870001979 ATP binding site [chemical binding]; other site 416870001980 Q-loop/lid; other site 416870001981 ABC transporter signature motif; other site 416870001982 Walker B; other site 416870001983 D-loop; other site 416870001984 H-loop/switch region; other site 416870001985 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 416870001986 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 416870001987 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 416870001988 dimer interface [polypeptide binding]; other site 416870001989 conserved gate region; other site 416870001990 putative PBP binding loops; other site 416870001991 ABC-ATPase subunit interface; other site 416870001992 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 416870001993 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 416870001994 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 416870001995 dimer interface [polypeptide binding]; other site 416870001996 conserved gate region; other site 416870001997 putative PBP binding loops; other site 416870001998 ABC-ATPase subunit interface; other site 416870001999 The substrate binding component of an ABC-type lactococcal OppA-like transport system contains; Region: PBP2_Lactococcal_OppA_like; cd08510 416870002000 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 416870002001 peptide binding site [polypeptide binding]; other site 416870002002 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 416870002003 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 416870002004 active site 416870002005 Zn binding site [ion binding]; other site 416870002006 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 416870002007 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 416870002008 Lactococcin-like family; Region: Lactococcin; pfam04369 416870002009 Enterocin A Immunity; Region: EntA_Immun; pfam08951 416870002010 Enterocin A Immunity; Region: EntA_Immun; pfam08951 416870002011 Protein of unknown function (DUF2089); Region: DUF2089; pfam09862 416870002012 Predicted transcriptional regulators [Transcription]; Region: COG1695 416870002013 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 416870002014 hypothetical protein; Validated; Region: PRK07668 416870002015 multiple promoter invertase; Provisional; Region: mpi; PRK13413 416870002016 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 416870002017 catalytic residues [active] 416870002018 catalytic nucleophile [active] 416870002019 Presynaptic Site I dimer interface [polypeptide binding]; other site 416870002020 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 416870002021 Synaptic Flat tetramer interface [polypeptide binding]; other site 416870002022 Synaptic Site I dimer interface [polypeptide binding]; other site 416870002023 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 416870002024 DNA-binding interface [nucleotide binding]; DNA binding site 416870002025 putative transposase OrfB; Reviewed; Region: PHA02517 416870002026 HTH-like domain; Region: HTH_21; pfam13276 416870002027 Integrase core domain; Region: rve; pfam00665 416870002028 Integrase core domain; Region: rve_3; pfam13683 416870002029 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 416870002030 Integrase core domain; Region: rve; pfam00665 416870002031 ThiF family; Region: ThiF; pfam00899 416870002032 ATP binding site [chemical binding]; other site 416870002033 substrate interface [chemical binding]; other site 416870002034 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 416870002035 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416870002036 Transposase; Region: HTH_Tnp_1; pfam01527 416870002037 putative transposase OrfB; Reviewed; Region: PHA02517 416870002038 HTH-like domain; Region: HTH_21; pfam13276 416870002039 Integrase core domain; Region: rve; pfam00665 416870002040 Integrase core domain; Region: rve_3; pfam13683 416870002041 seryl-tRNA synthetase; Provisional; Region: PRK05431 416870002042 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 416870002043 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 416870002044 dimer interface [polypeptide binding]; other site 416870002045 active site 416870002046 motif 1; other site 416870002047 motif 2; other site 416870002048 motif 3; other site 416870002049 Domain of unknown function (DUF956); Region: DUF956; cl01917 416870002050 Uncharacterized conserved protein [Function unknown]; Region: COG1284 416870002051 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 416870002052 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4687 416870002053 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 416870002054 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 416870002055 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 416870002056 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 416870002057 active pocket/dimerization site; other site 416870002058 active site 416870002059 phosphorylation site [posttranslational modification] 416870002060 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 416870002061 active site 416870002062 phosphorylation site [posttranslational modification] 416870002063 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 416870002064 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 416870002065 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 416870002066 cytidylate kinase; Provisional; Region: cmk; PRK00023 416870002067 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 416870002068 CMP-binding site; other site 416870002069 The sites determining sugar specificity; other site 416870002070 Transcriptional regulator [Transcription]; Region: LytR; COG1316 416870002071 Isochorismatase family; Region: Isochorismatase; pfam00857 416870002072 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 416870002073 catalytic triad [active] 416870002074 dimer interface [polypeptide binding]; other site 416870002075 conserved cis-peptide bond; other site 416870002076 CAAX protease self-immunity; Region: Abi; pfam02517 416870002077 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 416870002078 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 416870002079 dimer interface [polypeptide binding]; other site 416870002080 conserved gate region; other site 416870002081 putative PBP binding loops; other site 416870002082 ABC-ATPase subunit interface; other site 416870002083 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 416870002084 dimer interface [polypeptide binding]; other site 416870002085 conserved gate region; other site 416870002086 putative PBP binding loops; other site 416870002087 ABC-ATPase subunit interface; other site 416870002088 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 416870002089 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 416870002090 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 416870002091 homodimer interface [polypeptide binding]; other site 416870002092 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 416870002093 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 416870002094 active site 416870002095 homodimer interface [polypeptide binding]; other site 416870002096 catalytic site [active] 416870002097 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 416870002098 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 416870002099 Ca binding site [ion binding]; other site 416870002100 active site 416870002101 catalytic site [active] 416870002102 maltose O-acetyltransferase; Provisional; Region: PRK10092 416870002103 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 416870002104 active site 416870002105 substrate binding site [chemical binding]; other site 416870002106 trimer interface [polypeptide binding]; other site 416870002107 CoA binding site [chemical binding]; other site 416870002108 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 416870002109 Alpha amylase catalytic domain found in bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac2_AmyA; cd11316 416870002110 Ca binding site [ion binding]; other site 416870002111 active site 416870002112 catalytic site [active] 416870002113 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 416870002114 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 416870002115 Ca binding site [ion binding]; other site 416870002116 active site 416870002117 catalytic site [active] 416870002118 maltose phosphorylase; Provisional; Region: PRK13807 416870002119 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 416870002120 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 416870002121 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 416870002122 Transcriptional regulators [Transcription]; Region: PurR; COG1609 416870002123 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 416870002124 DNA binding site [nucleotide binding] 416870002125 domain linker motif; other site 416870002126 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 416870002127 putative dimerization interface [polypeptide binding]; other site 416870002128 putative ligand binding site [chemical binding]; other site 416870002129 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 416870002130 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 416870002131 active site 416870002132 phosphorylation site [posttranslational modification] 416870002133 intermolecular recognition site; other site 416870002134 dimerization interface [polypeptide binding]; other site 416870002135 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 416870002136 DNA binding site [nucleotide binding] 416870002137 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 416870002138 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 416870002139 dimer interface [polypeptide binding]; other site 416870002140 phosphorylation site [posttranslational modification] 416870002141 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 416870002142 ATP binding site [chemical binding]; other site 416870002143 Mg2+ binding site [ion binding]; other site 416870002144 G-X-G motif; other site 416870002145 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK12315 416870002146 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 416870002147 TPP-binding site; other site 416870002148 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 416870002149 PYR/PP interface [polypeptide binding]; other site 416870002150 dimer interface [polypeptide binding]; other site 416870002151 TPP binding site [chemical binding]; other site 416870002152 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 416870002153 Uncharacterized conserved protein [Function unknown]; Region: COG0759 416870002154 6-phospho-beta-glucosidase; Reviewed; Region: arb; PRK09593 416870002155 beta-galactosidase; Region: BGL; TIGR03356 416870002156 Predicted membrane protein [Function unknown]; Region: COG1511 416870002157 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 416870002158 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 416870002159 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 416870002160 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 416870002161 S-adenosylmethionine binding site [chemical binding]; other site 416870002162 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 416870002163 non-specific DNA binding site [nucleotide binding]; other site 416870002164 salt bridge; other site 416870002165 sequence-specific DNA binding site [nucleotide binding]; other site 416870002166 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 416870002167 Enterocin A Immunity; Region: EntA_Immun; pfam08951 416870002168 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 416870002169 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 416870002170 Cl- selectivity filter; other site 416870002171 Cl- binding residues [ion binding]; other site 416870002172 pore gating glutamate residue; other site 416870002173 dimer interface [polypeptide binding]; other site 416870002174 H+/Cl- coupling transport residue; other site 416870002175 TrkA-C domain; Region: TrkA_C; pfam02080 416870002176 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Provisional; Region: PRK13387 416870002177 UbiA prenyltransferase family; Region: UbiA; pfam01040 416870002178 Cpl-7 lysozyme C-terminal domain; Region: Cpl-7; smart01095 416870002179 Transglycosylase-like domain; Region: Transglycosylas; pfam06737 416870002180 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 416870002181 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 416870002182 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 416870002183 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 416870002184 ATP-binding site [chemical binding]; other site 416870002185 Sugar specificity; other site 416870002186 Pyrimidine base specificity; other site 416870002187 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 416870002188 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 416870002189 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 416870002190 active site 416870002191 motif I; other site 416870002192 motif II; other site 416870002193 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 416870002194 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 416870002195 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 416870002196 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 416870002197 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 416870002198 cell division protein GpsB; Provisional; Region: PRK14127 416870002199 DivIVA domain; Region: DivI1A_domain; TIGR03544 416870002200 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 416870002201 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 416870002202 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 416870002203 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 416870002204 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 416870002205 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 416870002206 active site 416870002207 catabolite control protein A; Region: ccpA; TIGR01481 416870002208 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 416870002209 DNA binding site [nucleotide binding] 416870002210 domain linker motif; other site 416870002211 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 416870002212 dimerization interface [polypeptide binding]; other site 416870002213 effector binding site; other site 416870002214 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 416870002215 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 416870002216 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 416870002217 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 416870002218 Colicin V production protein; Region: Colicin_V; pfam02674 416870002219 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 416870002220 MutS domain III; Region: MutS_III; pfam05192 416870002221 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 416870002222 Walker A/P-loop; other site 416870002223 ATP binding site [chemical binding]; other site 416870002224 Q-loop/lid; other site 416870002225 ABC transporter signature motif; other site 416870002226 Walker B; other site 416870002227 D-loop; other site 416870002228 H-loop/switch region; other site 416870002229 Smr domain; Region: Smr; pfam01713 416870002230 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 416870002231 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 416870002232 catalytic residues [active] 416870002233 Protein of unknown function (DUF2969); Region: DUF2969; pfam11184 416870002234 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 416870002235 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 416870002236 active site 416870002237 catalytic residue [active] 416870002238 dimer interface [polypeptide binding]; other site 416870002239 adenylosuccinate lyase; Provisional; Region: PRK07492 416870002240 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 416870002241 tetramer interface [polypeptide binding]; other site 416870002242 active site 416870002243 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 416870002244 Transcriptional regulators [Transcription]; Region: PurR; COG1609 416870002245 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 416870002246 DNA binding site [nucleotide binding] 416870002247 domain linker motif; other site 416870002248 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 416870002249 dimerization interface [polypeptide binding]; other site 416870002250 ligand binding site [chemical binding]; other site 416870002251 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 416870002252 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 416870002253 substrate binding site [chemical binding]; other site 416870002254 dimer interface [polypeptide binding]; other site 416870002255 ATP binding site [chemical binding]; other site 416870002256 D-ribose pyranase; Provisional; Region: PRK11797 416870002257 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 416870002258 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 416870002259 Walker A/P-loop; other site 416870002260 ATP binding site [chemical binding]; other site 416870002261 Q-loop/lid; other site 416870002262 ABC transporter signature motif; other site 416870002263 Walker B; other site 416870002264 D-loop; other site 416870002265 H-loop/switch region; other site 416870002266 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 416870002267 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 416870002268 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 416870002269 TM-ABC transporter signature motif; other site 416870002270 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 416870002271 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 416870002272 ligand binding site [chemical binding]; other site 416870002273 dimerization interface [polypeptide binding]; other site 416870002274 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 416870002275 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 416870002276 active site 416870002277 DNA binding site [nucleotide binding] 416870002278 Int/Topo IB signature motif; other site 416870002279 tRNA_anti-like; Region: tRNA_anti-like; pfam12869 416870002280 Domain of unknown function (DUF955); Region: DUF955; pfam06114 416870002281 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 416870002282 non-specific DNA binding site [nucleotide binding]; other site 416870002283 salt bridge; other site 416870002284 sequence-specific DNA binding site [nucleotide binding]; other site 416870002285 Protein of unknown function (Hypoth_ymh); Region: Hypoth_Ymh; pfam09509 416870002286 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 416870002287 non-specific DNA binding site [nucleotide binding]; other site 416870002288 salt bridge; other site 416870002289 sequence-specific DNA binding site [nucleotide binding]; other site 416870002290 Phage anti-repressor protein [Transcription]; Region: COG3561 416870002291 ORF6C domain; Region: ORF6C; pfam10552 416870002292 Helix-turn-helix domain; Region: HTH_17; pfam12728 416870002293 putative transcription regulator; Provisional; Region: PHA02503 416870002294 Bacteriophage Mu Gam like protein; Region: Phage_Mu_Gam; pfam07352 416870002295 phage nucleotide-binding protein; Region: phage_P_loop; TIGR01618 416870002296 AAA domain; Region: AAA_24; pfam13479 416870002297 Putative replisome organiser protein C-terminus; Region: Rep_Org_C; pfam06926 416870002298 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 416870002299 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 416870002300 Walker A motif; other site 416870002301 ATP binding site [chemical binding]; other site 416870002302 Walker B motif; other site 416870002303 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 416870002304 Protein of unknown function (DUF1031); Region: DUF1031; pfam06275 416870002305 Protein of unknown function (DUF1125); Region: DUF1125; pfam06563 416870002306 Protein of unknown function (DUF1642); Region: DUF1642; pfam07852 416870002307 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 416870002308 trimer interface [polypeptide binding]; other site 416870002309 active site 416870002310 Prophage protein (DUF1660); Region: DUF1660; pfam07874 416870002311 Protein of unknown function (DUF722); Region: DUF722; pfam05263 416870002312 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 416870002313 Integrase core domain; Region: rve; pfam00665 416870002314 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 416870002315 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 416870002316 Walker A motif; other site 416870002317 ATP binding site [chemical binding]; other site 416870002318 Walker B motif; other site 416870002319 arginine finger; other site 416870002320 Terminase small subunit; Region: Terminase_2; pfam03592 416870002321 Phage terminase large subunit; Region: Terminase_3; cl12054 416870002322 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 416870002323 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 416870002324 hypothetical protein; Provisional; Region: PRK14553 416870002325 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 416870002326 Protein of unknown function (DUF3892); Region: DUF3892; pfam13031 416870002327 Domain of unknown function (DUF4355); Region: DUF4355; pfam14265 416870002328 Phage capsid family; Region: Phage_capsid; pfam05065 416870002329 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 416870002330 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 416870002331 Head-Tail Connector Protein gp15 of Bacteriophage SPP1 and similar proteins; Region: gp15; cd08055 416870002332 Phage tail protein; Region: Phage_tail_3; pfam08813 416870002333 TPR/MLP1/MLP2-like protein; Region: TPR_MLP1_2; pfam07926 416870002334 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 416870002335 N-acetyl-D-glucosamine binding site [chemical binding]; other site 416870002336 catalytic residue [active] 416870002337 gp58-like protein; Region: Gp58; pfam07902 416870002338 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 416870002339 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 416870002340 active site 416870002341 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 416870002342 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 416870002343 Abi-like protein; Region: Abi_2; pfam07751 416870002344 Enterocin A Immunity; Region: EntA_Immun; pfam08951 416870002345 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 416870002346 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 416870002347 putative substrate translocation pore; other site 416870002348 Transcriptional regulators [Transcription]; Region: GntR; COG1802 416870002349 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 416870002350 DNA-binding site [nucleotide binding]; DNA binding site 416870002351 FCD domain; Region: FCD; pfam07729 416870002352 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 416870002353 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 416870002354 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 416870002355 mannonate dehydratase; Provisional; Region: PRK03906 416870002356 mannonate dehydratase; Region: uxuA; TIGR00695 416870002357 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 416870002358 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 416870002359 putative substrate translocation pore; other site 416870002360 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 416870002361 active site 416870002362 catalytic residues [active] 416870002363 Glucuronate isomerase; Region: UxaC; pfam02614 416870002364 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 416870002365 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 416870002366 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 416870002367 active site 416870002368 intersubunit interface [polypeptide binding]; other site 416870002369 catalytic residue [active] 416870002370 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 416870002371 PRD domain; Region: PRD; pfam00874 416870002372 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 416870002373 active site 416870002374 P-loop; other site 416870002375 phosphorylation site [posttranslational modification] 416870002376 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 416870002377 active site 416870002378 phosphorylation site [posttranslational modification] 416870002379 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 416870002380 active site 416870002381 P-loop; other site 416870002382 phosphorylation site [posttranslational modification] 416870002383 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 416870002384 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 416870002385 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 416870002386 TPP-binding site [chemical binding]; other site 416870002387 dimer interface [polypeptide binding]; other site 416870002388 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 416870002389 PYR/PP interface [polypeptide binding]; other site 416870002390 dimer interface [polypeptide binding]; other site 416870002391 TPP binding site [chemical binding]; other site 416870002392 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 416870002393 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 416870002394 amphipathic channel; other site 416870002395 Asn-Pro-Ala signature motifs; other site 416870002396 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 416870002397 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 416870002398 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 416870002399 nudix motif; other site 416870002400 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 416870002401 nudix motif; other site 416870002402 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 416870002403 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 416870002404 dimer interface [polypeptide binding]; other site 416870002405 active site 416870002406 catalytic residue [active] 416870002407 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 416870002408 MgtC family; Region: MgtC; pfam02308 416870002409 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 416870002410 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 416870002411 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 416870002412 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 416870002413 signal recognition particle protein; Provisional; Region: PRK10867 416870002414 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 416870002415 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 416870002416 P loop; other site 416870002417 GTP binding site [chemical binding]; other site 416870002418 Signal peptide binding domain; Region: SRP_SPB; pfam02978 416870002419 spermidine N1-acetyltransferase; Provisional; Region: PRK15130 416870002420 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 416870002421 Coenzyme A binding pocket [chemical binding]; other site 416870002422 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 416870002423 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 416870002424 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 416870002425 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 416870002426 Predicted membrane protein [Function unknown]; Region: COG4392 416870002427 Domain of unknown function (DUF1858); Region: DUF1858; pfam08984 416870002428 Uncharacterized conserved protein [Function unknown]; Region: COG2461 416870002429 Family of unknown function (DUF438); Region: DUF438; pfam04282 416870002430 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 416870002431 Glutamate 5-kinase [Amino acid transport and metabolism]; Region: ProB; COG0263 416870002432 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 416870002433 nucleotide binding site [chemical binding]; other site 416870002434 homotetrameric interface [polypeptide binding]; other site 416870002435 putative phosphate binding site [ion binding]; other site 416870002436 putative allosteric binding site; other site 416870002437 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 416870002438 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 416870002439 putative catalytic cysteine [active] 416870002440 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 416870002441 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 416870002442 dimerization interface [polypeptide binding]; other site 416870002443 putative DNA binding site [nucleotide binding]; other site 416870002444 putative Zn2+ binding site [ion binding]; other site 416870002445 Peptidase M50B-like; Region: Peptidase_M50B; pfam13398 416870002446 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 416870002447 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 416870002448 active site 416870002449 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 416870002450 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 416870002451 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 416870002452 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 416870002453 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 416870002454 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 416870002455 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 416870002456 catalytic site [active] 416870002457 subunit interface [polypeptide binding]; other site 416870002458 Host cell surface-exposed lipoprotein; Region: Lipoprotein_Ltp; pfam07553 416870002459 Host cell surface-exposed lipoprotein; Region: Lipoprotein_Ltp; pfam07553 416870002460 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 416870002461 metal binding site [ion binding]; metal-binding site 416870002462 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416870002463 Transposase; Region: HTH_Tnp_1; pfam01527 416870002464 putative transposase OrfB; Reviewed; Region: PHA02517 416870002465 HTH-like domain; Region: HTH_21; pfam13276 416870002466 Integrase core domain; Region: rve; pfam00665 416870002467 Integrase core domain; Region: rve_3; pfam13683 416870002468 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 416870002469 Low molecular weight phosphatase family; Region: LMWPc; cd00115 416870002470 active site 416870002471 phosphodiesterase YaeI; Provisional; Region: PRK11340 416870002472 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 416870002473 putative active site [active] 416870002474 putative metal binding site [ion binding]; other site 416870002475 CHAP domain; Region: CHAP; pfam05257 416870002476 conserved hypothetical protein; Region: TIGR02328 416870002477 Pyrimidine dimer DNA glycosylase; Region: Pyr_excise; pfam03013 416870002478 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 416870002479 Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]; Region: COG1399 416870002480 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 416870002481 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 416870002482 active site 416870002483 phosphorylation site [posttranslational modification] 416870002484 intermolecular recognition site; other site 416870002485 dimerization interface [polypeptide binding]; other site 416870002486 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 416870002487 DNA binding site [nucleotide binding] 416870002488 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 416870002489 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 416870002490 dimerization interface [polypeptide binding]; other site 416870002491 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 416870002492 dimer interface [polypeptide binding]; other site 416870002493 phosphorylation site [posttranslational modification] 416870002494 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 416870002495 ATP binding site [chemical binding]; other site 416870002496 Mg2+ binding site [ion binding]; other site 416870002497 G-X-G motif; other site 416870002498 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 416870002499 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 416870002500 Nitrogen regulatory protein P-II; Region: P-II; smart00938 416870002501 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 416870002502 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 416870002503 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 416870002504 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 416870002505 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 416870002506 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 416870002507 homodimer interface [polypeptide binding]; other site 416870002508 active site 416870002509 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 416870002510 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 416870002511 Cell division protein FtsQ; Region: FtsQ; pfam03799 416870002512 GTPase CgtA; Reviewed; Region: obgE; PRK12297 416870002513 GTP1/OBG; Region: GTP1_OBG; pfam01018 416870002514 Obg GTPase; Region: Obg; cd01898 416870002515 G1 box; other site 416870002516 GTP/Mg2+ binding site [chemical binding]; other site 416870002517 Switch I region; other site 416870002518 G2 box; other site 416870002519 G3 box; other site 416870002520 Switch II region; other site 416870002521 G4 box; other site 416870002522 G5 box; other site 416870002523 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 416870002524 WxL domain surface cell wall-binding; Region: WxL; pfam13731 416870002525 WxL domain surface cell wall-binding; Region: WxL; pfam13731 416870002526 WxL domain surface cell wall-binding; Region: WxL; pfam13731 416870002527 Bacterial protein of unknown function (DUF916); Region: DUF916; pfam06030 416870002528 Protein of unknown function C-terminal (DUF3324); Region: DUF3324; pfam11797 416870002529 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 416870002530 non-specific DNA binding site [nucleotide binding]; other site 416870002531 salt bridge; other site 416870002532 sequence-specific DNA binding site [nucleotide binding]; other site 416870002533 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 416870002534 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 416870002535 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 416870002536 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 416870002537 Serine hydrolase (FSH1); Region: FSH1; pfam03959 416870002538 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 416870002539 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 416870002540 active site 416870002541 trimer interface [polypeptide binding]; other site 416870002542 allosteric site; other site 416870002543 active site lid [active] 416870002544 hexamer (dimer of trimers) interface [polypeptide binding]; other site 416870002545 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 416870002546 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 416870002547 dimer interface [polypeptide binding]; other site 416870002548 active site 416870002549 putative acyltransferase; Provisional; Region: PRK05790 416870002550 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 416870002551 dimer interface [polypeptide binding]; other site 416870002552 active site 416870002553 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 416870002554 homodimer interface [polypeptide binding]; other site 416870002555 catalytic residues [active] 416870002556 NAD binding site [chemical binding]; other site 416870002557 substrate binding pocket [chemical binding]; other site 416870002558 flexible flap; other site 416870002559 Ribosomal protein S16 [Translation, ribosomal structure and biogenesis]; Region: RpsP; COG0228 416870002560 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 416870002561 KH domain; Region: KH_4; pfam13083 416870002562 Ferrochelatase; Region: Ferrochelatase; pfam00762 416870002563 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 416870002564 C-terminal domain interface [polypeptide binding]; other site 416870002565 active site 416870002566 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 416870002567 active site 416870002568 N-terminal domain interface [polypeptide binding]; other site 416870002569 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 416870002570 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 416870002571 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 416870002572 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 416870002573 RimM N-terminal domain; Region: RimM; pfam01782 416870002574 PRC-barrel domain; Region: PRC; pfam05239 416870002575 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 416870002576 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4835 416870002577 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DegV; COG1307 416870002578 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 416870002579 dihydrodipicolinate reductase; Provisional; Region: PRK00048 416870002580 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 416870002581 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 416870002582 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 416870002583 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416870002584 Coenzyme A binding pocket [chemical binding]; other site 416870002585 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 416870002586 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 416870002587 active site 416870002588 NTP binding site [chemical binding]; other site 416870002589 metal binding triad [ion binding]; metal-binding site 416870002590 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 416870002591 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 416870002592 Dipeptidase [Amino acid transport and metabolism]; Region: PepD; COG4690 416870002593 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 416870002594 Glycerol dehydrogenases-like; Region: GlyDH-like1; cd08172 416870002595 putative active site [active] 416870002596 metal binding site [ion binding]; metal-binding site 416870002597 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416870002598 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416870002599 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 416870002600 dimerization interface [polypeptide binding]; other site 416870002601 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 416870002602 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416870002603 Walker A/P-loop; other site 416870002604 ATP binding site [chemical binding]; other site 416870002605 Q-loop/lid; other site 416870002606 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 416870002607 ABC transporter signature motif; other site 416870002608 Walker B; other site 416870002609 D-loop; other site 416870002610 ABC transporter; Region: ABC_tran_2; pfam12848 416870002611 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 416870002612 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 416870002613 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 416870002614 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 416870002615 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 416870002616 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 416870002617 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 416870002618 active site 416870002619 FMN binding site [chemical binding]; other site 416870002620 substrate binding site [chemical binding]; other site 416870002621 catalytic residues [active] 416870002622 homodimer interface [polypeptide binding]; other site 416870002623 Predicted membrane protein [Function unknown]; Region: COG4905 416870002624 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 416870002625 Enterocin A Immunity; Region: EntA_Immun; pfam08951 416870002626 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH3; cd08287 416870002627 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 416870002628 catalytic Zn binding site [ion binding]; other site 416870002629 NAD(P) binding site [chemical binding]; other site 416870002630 structural Zn binding site [ion binding]; other site 416870002631 Transcriptional regulators [Transcription]; Region: PurR; COG1609 416870002632 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 416870002633 DNA binding site [nucleotide binding] 416870002634 domain linker motif; other site 416870002635 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 416870002636 ligand binding site [chemical binding]; other site 416870002637 dimerization interface [polypeptide binding]; other site 416870002638 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 416870002639 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 416870002640 substrate binding site [chemical binding]; other site 416870002641 hexamer interface [polypeptide binding]; other site 416870002642 metal binding site [ion binding]; metal-binding site 416870002643 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 416870002644 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 416870002645 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 416870002646 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 416870002647 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 416870002648 nucleotide binding site [chemical binding]; other site 416870002649 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416870002650 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 416870002651 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416870002652 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 416870002653 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 416870002654 thymidylate synthase; Reviewed; Region: thyA; PRK01827 416870002655 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 416870002656 dimerization interface [polypeptide binding]; other site 416870002657 active site 416870002658 Transcriptional regulators [Transcription]; Region: MarR; COG1846 416870002659 MarR family; Region: MarR_2; pfam12802 416870002660 putative transporter; Provisional; Region: PRK10504 416870002661 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 416870002662 putative substrate translocation pore; other site 416870002663 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 416870002664 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 416870002665 classical (c) SDRs; Region: SDR_c; cd05233 416870002666 NAD(P) binding site [chemical binding]; other site 416870002667 active site 416870002668 Uncharacterized protein conserved in bacteria (DUF2255); Region: DUF2255; cl01788 416870002669 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 416870002670 Uncharacterized conserved protein [Function unknown]; Region: COG1359 416870002671 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 416870002672 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 416870002673 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 416870002674 ATP binding site [chemical binding]; other site 416870002675 active site 416870002676 substrate binding site [chemical binding]; other site 416870002677 Phosphoribosylformylglycinamidine (FGAM) synthase, PurS component [Nucleotide transport and metabolism]; Region: PurS; COG1828 416870002678 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 416870002679 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 416870002680 putative active site [active] 416870002681 catalytic triad [active] 416870002682 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 416870002683 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 416870002684 dimerization interface [polypeptide binding]; other site 416870002685 ATP binding site [chemical binding]; other site 416870002686 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 416870002687 dimerization interface [polypeptide binding]; other site 416870002688 ATP binding site [chemical binding]; other site 416870002689 amidophosphoribosyltransferase; Provisional; Region: PRK07272 416870002690 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 416870002691 active site 416870002692 tetramer interface [polypeptide binding]; other site 416870002693 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 416870002694 active site 416870002695 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416870002696 Transposase; Region: HTH_Tnp_1; pfam01527 416870002697 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416870002698 Helix-turn-helix domain; Region: HTH_28; pfam13518 416870002699 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416870002700 Transposase; Region: HTH_Tnp_1; cl17663 416870002701 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 416870002702 Clp amino terminal domain; Region: Clp_N; pfam02861 416870002703 Clp amino terminal domain; Region: Clp_N; pfam02861 416870002704 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 416870002705 Walker A motif; other site 416870002706 ATP binding site [chemical binding]; other site 416870002707 Walker B motif; other site 416870002708 arginine finger; other site 416870002709 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 416870002710 Walker A motif; other site 416870002711 ATP binding site [chemical binding]; other site 416870002712 Walker B motif; other site 416870002713 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 416870002714 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 416870002715 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 416870002716 dimerization interface [polypeptide binding]; other site 416870002717 putative ATP binding site [chemical binding]; other site 416870002718 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 416870002719 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 416870002720 active site 416870002721 substrate binding site [chemical binding]; other site 416870002722 cosubstrate binding site; other site 416870002723 catalytic site [active] 416870002724 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 416870002725 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 416870002726 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 416870002727 Walker A/P-loop; other site 416870002728 ATP binding site [chemical binding]; other site 416870002729 Q-loop/lid; other site 416870002730 ABC transporter signature motif; other site 416870002731 Walker B; other site 416870002732 D-loop; other site 416870002733 H-loop/switch region; other site 416870002734 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 416870002735 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 416870002736 aldehyde reductase, extended (e) SDRs; Region: AR_SDR_e; cd05227 416870002737 NADP binding site [chemical binding]; other site 416870002738 putative substrate binding site [chemical binding]; other site 416870002739 active site 416870002740 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 416870002741 active site 416870002742 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 416870002743 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 416870002744 purine monophosphate binding site [chemical binding]; other site 416870002745 dimer interface [polypeptide binding]; other site 416870002746 putative catalytic residues [active] 416870002747 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 416870002748 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 416870002749 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 416870002750 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 416870002751 motif II; other site 416870002752 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 416870002753 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 416870002754 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 416870002755 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 416870002756 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 416870002757 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 416870002758 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 416870002759 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 416870002760 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 416870002761 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 416870002762 ATP-grasp domain; Region: ATP-grasp; pfam02222 416870002763 Cupin domain; Region: Cupin_2; pfam07883 416870002764 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416870002765 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 416870002766 Xylose isomerase [Carbohydrate transport and metabolism]; Region: XylA; cl09945 416870002767 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 416870002768 Integrase core domain; Region: rve; pfam00665 416870002769 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 416870002770 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 416870002771 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 416870002772 nucleotide binding site [chemical binding]; other site 416870002773 butyrate kinase; Provisional; Region: PRK03011 416870002774 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 416870002775 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 416870002776 nucleotide binding site [chemical binding]; other site 416870002777 GMP synthase; Reviewed; Region: guaA; PRK00074 416870002778 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 416870002779 AMP/PPi binding site [chemical binding]; other site 416870002780 candidate oxyanion hole; other site 416870002781 catalytic triad [active] 416870002782 potential glutamine specificity residues [chemical binding]; other site 416870002783 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 416870002784 ATP Binding subdomain [chemical binding]; other site 416870002785 Dimerization subdomain; other site 416870002786 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 416870002787 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 416870002788 dimer interface [polypeptide binding]; other site 416870002789 conserved gate region; other site 416870002790 ABC-ATPase subunit interface; other site 416870002791 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 416870002792 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 416870002793 dimer interface [polypeptide binding]; other site 416870002794 conserved gate region; other site 416870002795 ABC-ATPase subunit interface; other site 416870002796 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 416870002797 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 416870002798 Glycosyl hydrolase family 67 N-terminus; Region: Glyco_hydro_67N; pfam03648 416870002799 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 416870002800 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 416870002801 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 416870002802 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 416870002803 Cl binding site [ion binding]; other site 416870002804 oligomer interface [polypeptide binding]; other site 416870002805 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 416870002806 MarR family; Region: MarR; pfam01047 416870002807 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 416870002808 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870002809 NAD(P) binding site [chemical binding]; other site 416870002810 active site 416870002811 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 416870002812 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 416870002813 DNA binding residues [nucleotide binding] 416870002814 putative dimer interface [polypeptide binding]; other site 416870002815 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 416870002816 EamA-like transporter family; Region: EamA; pfam00892 416870002817 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 416870002818 metal binding site 2 [ion binding]; metal-binding site 416870002819 putative DNA binding helix; other site 416870002820 metal binding site 1 [ion binding]; metal-binding site 416870002821 dimer interface [polypeptide binding]; other site 416870002822 structural Zn2+ binding site [ion binding]; other site 416870002823 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 416870002824 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 416870002825 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 416870002826 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 416870002827 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 416870002828 putative DNA binding site [nucleotide binding]; other site 416870002829 putative Zn2+ binding site [ion binding]; other site 416870002830 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 416870002831 dimer interface [polypeptide binding]; other site 416870002832 FMN binding site [chemical binding]; other site 416870002833 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 416870002834 anthranilate synthase component I; Provisional; Region: PRK13570 416870002835 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 416870002836 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 416870002837 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 416870002838 Glutamine amidotransferase class-I; Region: GATase; pfam00117 416870002839 glutamine binding [chemical binding]; other site 416870002840 catalytic triad [active] 416870002841 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 416870002842 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 416870002843 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 416870002844 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 416870002845 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 416870002846 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 416870002847 active site 416870002848 ribulose/triose binding site [chemical binding]; other site 416870002849 phosphate binding site [ion binding]; other site 416870002850 substrate (anthranilate) binding pocket [chemical binding]; other site 416870002851 product (indole) binding pocket [chemical binding]; other site 416870002852 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 416870002853 active site 416870002854 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 416870002855 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 416870002856 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 416870002857 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416870002858 catalytic residue [active] 416870002859 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 416870002860 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 416870002861 substrate binding site [chemical binding]; other site 416870002862 active site 416870002863 catalytic residues [active] 416870002864 heterodimer interface [polypeptide binding]; other site 416870002865 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 416870002866 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 416870002867 active site turn [active] 416870002868 phosphorylation site [posttranslational modification] 416870002869 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 416870002870 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 416870002871 HPr interaction site; other site 416870002872 glycerol kinase (GK) interaction site [polypeptide binding]; other site 416870002873 active site 416870002874 phosphorylation site [posttranslational modification] 416870002875 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 416870002876 beta-galactosidase; Region: BGL; TIGR03356 416870002877 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 416870002878 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 416870002879 DNA-binding site [nucleotide binding]; DNA binding site 416870002880 Putative regulatory, ligand-binding protein related to C-terminal domains of K+ channels [Inorganic ion transport and metabolism]; Region: COG0490 416870002881 TrkA-C domain; Region: TrkA_C; pfam02080 416870002882 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 416870002883 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 416870002884 Walker A/P-loop; other site 416870002885 ATP binding site [chemical binding]; other site 416870002886 Q-loop/lid; other site 416870002887 ABC transporter signature motif; other site 416870002888 Walker B; other site 416870002889 D-loop; other site 416870002890 H-loop/switch region; other site 416870002891 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 416870002892 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 416870002893 dimer interface [polypeptide binding]; other site 416870002894 conserved gate region; other site 416870002895 putative PBP binding loops; other site 416870002896 ABC-ATPase subunit interface; other site 416870002897 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 416870002898 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 416870002899 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 416870002900 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 416870002901 Active Sites [active] 416870002902 Domain of unknown function (DUF3440); Region: DUF3440; pfam11922 416870002903 Domain of unknown function (DUF3440); Region: DUF3440; pfam11922 416870002904 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 416870002905 ParB-like nuclease domain; Region: ParB; smart00470 416870002906 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 416870002907 non-specific DNA binding site [nucleotide binding]; other site 416870002908 salt bridge; other site 416870002909 sequence-specific DNA binding site [nucleotide binding]; other site 416870002910 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 416870002911 Cation efflux family; Region: Cation_efflux; pfam01545 416870002912 Phosphate-starvation-inducible E; Region: PsiE; cl01264 416870002913 pantothenate kinase; Provisional; Region: PRK05439 416870002914 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...; Region: PanK; cd02025 416870002915 ATP-binding site [chemical binding]; other site 416870002916 CoA-binding site [chemical binding]; other site 416870002917 Mg2+-binding site [ion binding]; other site 416870002918 Methyltransferase domain; Region: Methyltransf_31; pfam13847 416870002919 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 416870002920 S-adenosylmethionine binding site [chemical binding]; other site 416870002921 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 416870002922 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 416870002923 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 416870002924 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 416870002925 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 416870002926 intersubunit interface [polypeptide binding]; other site 416870002927 active site 416870002928 catalytic residue [active] 416870002929 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 416870002930 active site 416870002931 catalytic motif [active] 416870002932 Zn binding site [ion binding]; other site 416870002933 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 416870002934 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 416870002935 ligand binding site [chemical binding]; other site 416870002936 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 416870002937 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 416870002938 DNA-binding site [nucleotide binding]; DNA binding site 416870002939 UTRA domain; Region: UTRA; pfam07702 416870002940 Domain of unknown function (DUF4395); Region: DUF4395; pfam14340 416870002941 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 416870002942 dimer interface [polypeptide binding]; other site 416870002943 phosphorylation site [posttranslational modification] 416870002944 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 416870002945 ATP binding site [chemical binding]; other site 416870002946 Mg2+ binding site [ion binding]; other site 416870002947 G-X-G motif; other site 416870002948 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 416870002949 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 416870002950 active site 416870002951 phosphorylation site [posttranslational modification] 416870002952 intermolecular recognition site; other site 416870002953 dimerization interface [polypeptide binding]; other site 416870002954 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 416870002955 DNA binding site [nucleotide binding] 416870002956 putative DNA-binding protein; Validated; Region: PRK00118 416870002957 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 416870002958 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416870002959 Helix-turn-helix domain; Region: HTH_28; pfam13518 416870002960 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416870002961 Helix-turn-helix domain; Region: HTH_28; pfam13518 416870002962 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416870002963 Transposase; Region: HTH_Tnp_1; pfam01527 416870002964 HTH-like domain; Region: HTH_21; pfam13276 416870002965 Integrase core domain; Region: rve; pfam00665 416870002966 Integrase core domain; Region: rve_3; cl15866 416870002967 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 416870002968 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 416870002969 Walker A motif; other site 416870002970 ATP binding site [chemical binding]; other site 416870002971 Walker B motif; other site 416870002972 arginine finger; other site 416870002973 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 416870002974 Integrase core domain; Region: rve; pfam00665 416870002975 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 416870002976 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 416870002977 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 416870002978 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 416870002979 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5294 416870002980 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 416870002981 Ligand Binding Site [chemical binding]; other site 416870002982 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 416870002983 TraX protein; Region: TraX; cl05434 416870002984 Protein of unknown function (DUF1211); Region: DUF1211; cl01421 416870002985 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 416870002986 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 416870002987 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 416870002988 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 416870002989 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 416870002990 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 416870002991 motif II; other site 416870002992 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 416870002993 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 416870002994 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 416870002995 catalytic residues [active] 416870002996 dimer interface [polypeptide binding]; other site 416870002997 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 416870002998 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 416870002999 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 416870003000 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 416870003001 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 416870003002 ATP-grasp domain; Region: ATP-grasp_4; cl17255 416870003003 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 416870003004 IMP binding site; other site 416870003005 dimer interface [polypeptide binding]; other site 416870003006 interdomain contacts; other site 416870003007 partial ornithine binding site; other site 416870003008 Bacterial protein of unknown function (DUF916); Region: DUF916; pfam06030 416870003009 WxL domain surface cell wall-binding; Region: WxL; pfam13731 416870003010 Bacterial protein of unknown function (DUF916); Region: DUF916; pfam06030 416870003011 Protein of unknown function C-terminal (DUF3324); Region: DUF3324; pfam11797 416870003012 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 416870003013 amphipathic channel; other site 416870003014 Asn-Pro-Ala signature motifs; other site 416870003015 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 416870003016 hydroxyglutarate oxidase; Provisional; Region: PRK11728 416870003017 glycerol kinase; Provisional; Region: glpK; PRK00047 416870003018 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 416870003019 N- and C-terminal domain interface [polypeptide binding]; other site 416870003020 active site 416870003021 MgATP binding site [chemical binding]; other site 416870003022 catalytic site [active] 416870003023 metal binding site [ion binding]; metal-binding site 416870003024 glycerol binding site [chemical binding]; other site 416870003025 homotetramer interface [polypeptide binding]; other site 416870003026 homodimer interface [polypeptide binding]; other site 416870003027 FBP binding site [chemical binding]; other site 416870003028 protein IIAGlc interface [polypeptide binding]; other site 416870003029 Pseudouridine synthase, Escherichia coli RluE; Region: PseudoU_synth_RluE; cd02566 416870003030 pseudouridine synthase; Region: TIGR00093 416870003031 probable active site [active] 416870003032 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 416870003033 Repair protein; Region: Repair_PSII; pfam04536 416870003034 hypothetical protein; Provisional; Region: PRK12495 416870003035 Membrane protease subunit, stomatin/prohibitin family [Amino acid transport and metabolism]; Region: COG4260 416870003036 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 416870003037 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 416870003038 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 416870003039 Major Facilitator Superfamily; Region: MFS_1; pfam07690 416870003040 putative substrate translocation pore; other site 416870003041 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 416870003042 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 416870003043 FAD binding pocket [chemical binding]; other site 416870003044 FAD binding motif [chemical binding]; other site 416870003045 phosphate binding motif [ion binding]; other site 416870003046 beta-alpha-beta structure motif; other site 416870003047 NAD binding pocket [chemical binding]; other site 416870003048 Iron coordination center [ion binding]; other site 416870003049 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 416870003050 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 416870003051 heterodimer interface [polypeptide binding]; other site 416870003052 active site 416870003053 FMN binding site [chemical binding]; other site 416870003054 homodimer interface [polypeptide binding]; other site 416870003055 substrate binding site [chemical binding]; other site 416870003056 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 416870003057 active site 416870003058 dimer interface [polypeptide binding]; other site 416870003059 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 416870003060 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 416870003061 S-adenosylmethionine binding site [chemical binding]; other site 416870003062 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 416870003063 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 416870003064 substrate binding pocket [chemical binding]; other site 416870003065 chain length determination region; other site 416870003066 substrate-Mg2+ binding site; other site 416870003067 catalytic residues [active] 416870003068 aspartate-rich region 1; other site 416870003069 active site lid residues [active] 416870003070 aspartate-rich region 2; other site 416870003071 Predicted membrane protein [Function unknown]; Region: COG4769 416870003072 Listerrria innocua Lin0431 is similar to the N-Utilization Substance G (NusG) N terminal (NGN) insert (DII); Region: Lin0431_like; cd09911 416870003073 trimer interface [polypeptide binding]; other site 416870003074 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 416870003075 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 416870003076 active site 416870003077 tetramer interface; other site 416870003078 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 416870003079 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 416870003080 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 416870003081 5-bromo-4-chloroindolyl phosphate hydrolysis protein [General function prediction only]; Region: XpaC; COG4915 416870003082 Uncharacterized protein involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TelA; COG3853 416870003083 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 416870003084 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 416870003085 active site 416870003086 dimer interface [polypeptide binding]; other site 416870003087 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 416870003088 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 416870003089 active site 416870003090 ADP/pyrophosphate binding site [chemical binding]; other site 416870003091 dimerization interface [polypeptide binding]; other site 416870003092 allosteric effector site; other site 416870003093 fructose-1,6-bisphosphate binding site; other site 416870003094 pyruvate kinase; Provisional; Region: PRK05826 416870003095 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 416870003096 domain interfaces; other site 416870003097 active site 416870003098 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 416870003099 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 416870003100 tetramer (dimer of dimers) interface [polypeptide binding]; other site 416870003101 NAD binding site [chemical binding]; other site 416870003102 dimer interface [polypeptide binding]; other site 416870003103 substrate binding site [chemical binding]; other site 416870003104 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 416870003105 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 416870003106 TM-ABC transporter signature motif; other site 416870003107 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 416870003108 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 416870003109 TM-ABC transporter signature motif; other site 416870003110 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 416870003111 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 416870003112 Walker A/P-loop; other site 416870003113 ATP binding site [chemical binding]; other site 416870003114 Q-loop/lid; other site 416870003115 ABC transporter signature motif; other site 416870003116 Walker B; other site 416870003117 D-loop; other site 416870003118 H-loop/switch region; other site 416870003119 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 416870003120 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 416870003121 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 416870003122 S-adenosylmethionine binding site [chemical binding]; other site 416870003123 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 416870003124 Domain of unknown function (DUF814); Region: DUF814; pfam05670 416870003125 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 416870003126 Lactococcus lactis bacteriophage major structural protein; Region: L_lac_phage_MSP; pfam06488 416870003127 Lactococcus lactis bacteriophage major structural protein; Region: L_lac_phage_MSP; pfam06488 416870003128 Lactococcus lactis bacteriophage major structural protein; Region: L_lac_phage_MSP; pfam06488 416870003129 Lactococcus lactis bacteriophage major structural protein; Region: L_lac_phage_MSP; pfam06488 416870003130 Lactococcus lactis bacteriophage major structural protein; Region: L_lac_phage_MSP; pfam06488 416870003131 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 416870003132 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 416870003133 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 416870003134 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 416870003135 ArsC family; Region: ArsC; pfam03960 416870003136 putative catalytic residues [active] 416870003137 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 416870003138 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 416870003139 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 416870003140 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 416870003141 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 416870003142 active site 416870003143 metal binding site [ion binding]; metal-binding site 416870003144 DNA binding site [nucleotide binding] 416870003145 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 416870003146 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 416870003147 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 416870003148 Walker A/P-loop; other site 416870003149 ATP binding site [chemical binding]; other site 416870003150 Q-loop/lid; other site 416870003151 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416870003152 ABC transporter signature motif; other site 416870003153 Walker B; other site 416870003154 D-loop; other site 416870003155 H-loop/switch region; other site 416870003156 Domain of unknown function (DUF4176); Region: DUF4176; cl01867 416870003157 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 416870003158 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 416870003159 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 416870003160 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 416870003161 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 416870003162 ABC-ATPase subunit interface; other site 416870003163 dimer interface [polypeptide binding]; other site 416870003164 putative PBP binding regions; other site 416870003165 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 416870003166 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 416870003167 metal binding site [ion binding]; metal-binding site 416870003168 plasmid segregation protein ParM; Provisional; Region: PRK13917 416870003169 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 416870003170 Mg binding site [ion binding]; other site 416870003171 nucleotide binding site [chemical binding]; other site 416870003172 putative protofilament interface [polypeptide binding]; other site 416870003173 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 416870003174 non-specific DNA binding site [nucleotide binding]; other site 416870003175 salt bridge; other site 416870003176 sequence-specific DNA binding site [nucleotide binding]; other site 416870003177 Transposase, Mutator family; Region: Transposase_mut; pfam00872 416870003178 MULE transposase domain; Region: MULE; pfam10551 416870003179 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 416870003180 non-specific DNA binding site [nucleotide binding]; other site 416870003181 salt bridge; other site 416870003182 sequence-specific DNA binding site [nucleotide binding]; other site 416870003183 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 416870003184 putative transposase OrfB; Reviewed; Region: PHA02517 416870003185 HTH-like domain; Region: HTH_21; pfam13276 416870003186 Integrase core domain; Region: rve; pfam00665 416870003187 Integrase core domain; Region: rve_3; pfam13683 416870003188 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416870003189 Transposase; Region: HTH_Tnp_1; pfam01527 416870003190 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 416870003191 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 416870003192 non-specific DNA binding site [nucleotide binding]; other site 416870003193 salt bridge; other site 416870003194 sequence-specific DNA binding site [nucleotide binding]; other site 416870003195 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 416870003196 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 416870003197 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 416870003198 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 416870003199 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 416870003200 DNA-binding site [nucleotide binding]; DNA binding site 416870003201 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 416870003202 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416870003203 homodimer interface [polypeptide binding]; other site 416870003204 catalytic residue [active] 416870003205 legume lectins; Region: lectin_L-type; cd01951 416870003206 homotetramer interaction site [polypeptide binding]; other site 416870003207 carbohydrate binding site [chemical binding]; other site 416870003208 metal binding site [ion binding]; metal-binding site 416870003209 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 416870003210 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 416870003211 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 416870003212 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 416870003213 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 416870003214 glutamine binding [chemical binding]; other site 416870003215 catalytic triad [active] 416870003216 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 416870003217 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 416870003218 chorismate binding enzyme; Region: Chorismate_bind; cl10555 416870003219 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 416870003220 substrate-cofactor binding pocket; other site 416870003221 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 416870003222 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416870003223 catalytic residue [active] 416870003224 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 416870003225 ArsC family; Region: ArsC; pfam03960 416870003226 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 416870003227 Protein of unknown function (DUF1706); Region: DUF1706; cl01748 416870003228 Protein of unknown function (DUF1706); Region: DUF1706; cl01748 416870003229 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 416870003230 Domain of unknown function (DUF303); Region: DUF303; pfam03629 416870003231 Domain of unknown function (DUF303); Region: DUF303; pfam03629 416870003232 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 416870003233 Domain of unknown function (DUF303); Region: DUF303; pfam03629 416870003234 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 416870003235 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 416870003236 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 416870003237 dimer interface [polypeptide binding]; other site 416870003238 conserved gate region; other site 416870003239 putative PBP binding loops; other site 416870003240 ABC-ATPase subunit interface; other site 416870003241 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 416870003242 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 416870003243 dimer interface [polypeptide binding]; other site 416870003244 conserved gate region; other site 416870003245 putative PBP binding loops; other site 416870003246 ABC-ATPase subunit interface; other site 416870003247 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 416870003248 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 416870003249 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 416870003250 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 416870003251 NodB motif; other site 416870003252 active site 416870003253 catalytic site [active] 416870003254 metal binding site [ion binding]; metal-binding site 416870003255 Glycosyl hydrolase family 67 middle domain; Region: Glyco_hydro_67M; pfam07488 416870003256 Glycosyl hydrolase family 67 C-terminus; Region: Glyco_hydro_67C; pfam07477 416870003257 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 416870003258 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 416870003259 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 416870003260 active site 416870003261 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 416870003262 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 416870003263 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 416870003264 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 416870003265 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 416870003266 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 416870003267 GTP/Mg2+ binding site [chemical binding]; other site 416870003268 G4 box; other site 416870003269 G5 box; other site 416870003270 G1 box; other site 416870003271 Switch I region; other site 416870003272 G2 box; other site 416870003273 G3 box; other site 416870003274 Switch II region; other site 416870003275 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 416870003276 RNA/DNA hybrid binding site [nucleotide binding]; other site 416870003277 active site 416870003278 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 416870003279 non-specific DNA binding site [nucleotide binding]; other site 416870003280 salt bridge; other site 416870003281 sequence-specific DNA binding site [nucleotide binding]; other site 416870003282 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 416870003283 glutamate:gamma-aminobutyrate antiporter; Region: 2A0307_GadC; TIGR00910 416870003284 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 416870003285 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416870003286 catalytic residue [active] 416870003287 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 416870003288 Mechanosensitive ion channel; Region: MS_channel; pfam00924 416870003289 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 416870003290 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 416870003291 homodimer interface [polypeptide binding]; other site 416870003292 substrate-cofactor binding pocket; other site 416870003293 catalytic residue [active] 416870003294 galactoside O-acetyltransferase; Reviewed; Region: lacA; PRK09527 416870003295 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 416870003296 active site 416870003297 substrate binding site [chemical binding]; other site 416870003298 trimer interface [polypeptide binding]; other site 416870003299 CoA binding site [chemical binding]; other site 416870003300 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 416870003301 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 416870003302 active site 416870003303 dimer interface [polypeptide binding]; other site 416870003304 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 416870003305 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 416870003306 active site 416870003307 FMN binding site [chemical binding]; other site 416870003308 substrate binding site [chemical binding]; other site 416870003309 3Fe-4S cluster binding site [ion binding]; other site 416870003310 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 416870003311 domain interface; other site 416870003312 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 416870003313 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 416870003314 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 416870003315 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 416870003316 active site 416870003317 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 416870003318 substrate binding site [chemical binding]; other site 416870003319 catalytic residues [active] 416870003320 dimer interface [polypeptide binding]; other site 416870003321 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3763 416870003322 glutamate racemase; Provisional; Region: PRK00865 416870003323 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 416870003324 active site 416870003325 dimerization interface [polypeptide binding]; other site 416870003326 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 416870003327 active site 416870003328 metal binding site [ion binding]; metal-binding site 416870003329 homotetramer interface [polypeptide binding]; other site 416870003330 FOG: CBS domain [General function prediction only]; Region: COG0517 416870003331 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 416870003332 site-specific tyrosine recombinase XerD-like protein; Reviewed; Region: xerD; PRK02436 416870003333 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 416870003334 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 416870003335 active site 416870003336 catalytic residues [active] 416870003337 DNA binding site [nucleotide binding] 416870003338 Int/Topo IB signature motif; other site 416870003339 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 416870003340 segregation and condensation protein B; Reviewed; Region: scpB; PRK00135 416870003341 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 416870003342 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 416870003343 RNA binding surface [nucleotide binding]; other site 416870003344 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 416870003345 active site 416870003346 Predicted membrane protein [Function unknown]; Region: COG3601 416870003347 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 416870003348 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 416870003349 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 416870003350 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 416870003351 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416870003352 Walker A/P-loop; other site 416870003353 ATP binding site [chemical binding]; other site 416870003354 Q-loop/lid; other site 416870003355 ABC transporter signature motif; other site 416870003356 Walker B; other site 416870003357 D-loop; other site 416870003358 H-loop/switch region; other site 416870003359 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 416870003360 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 416870003361 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 416870003362 Walker A/P-loop; other site 416870003363 ATP binding site [chemical binding]; other site 416870003364 Q-loop/lid; other site 416870003365 ABC transporter signature motif; other site 416870003366 Walker B; other site 416870003367 D-loop; other site 416870003368 H-loop/switch region; other site 416870003369 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 416870003370 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 416870003371 non-specific DNA binding site [nucleotide binding]; other site 416870003372 salt bridge; other site 416870003373 sequence-specific DNA binding site [nucleotide binding]; other site 416870003374 Predicted transcriptional regulator [Transcription]; Region: COG2932 416870003375 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 416870003376 Catalytic site [active] 416870003377 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 416870003378 23S rRNA interface [nucleotide binding]; other site 416870003379 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 416870003380 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 416870003381 core dimer interface [polypeptide binding]; other site 416870003382 peripheral dimer interface [polypeptide binding]; other site 416870003383 L10 interface [polypeptide binding]; other site 416870003384 L11 interface [polypeptide binding]; other site 416870003385 putative EF-Tu interaction site [polypeptide binding]; other site 416870003386 putative EF-G interaction site [polypeptide binding]; other site 416870003387 MarR family; Region: MarR_2; pfam12802 416870003388 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 416870003389 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 416870003390 putative substrate translocation pore; other site 416870003391 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 416870003392 N-acetyl-glucosamine transferase is involved in the synthesis of Poly-beta-1,6-N-acetyl-D-glucosamine; Region: GlcNAc-1-P_transferase; cd06436 416870003393 DXD motif; other site 416870003394 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 416870003395 substrate binding site [chemical binding]; other site 416870003396 multimerization interface [polypeptide binding]; other site 416870003397 ATP binding site [chemical binding]; other site 416870003398 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 416870003399 substrate binding site [chemical binding]; other site 416870003400 dimer interface [polypeptide binding]; other site 416870003401 ATP binding site [chemical binding]; other site 416870003402 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 416870003403 thiamine phosphate binding site [chemical binding]; other site 416870003404 active site 416870003405 pyrophosphate binding site [ion binding]; other site 416870003406 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 416870003407 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 416870003408 acyl-activating enzyme (AAE) consensus motif; other site 416870003409 AMP binding site [chemical binding]; other site 416870003410 D-alanyl-lipoteichoic acid biosynthesis protein DltB; Region: LTA_dltB; TIGR04091 416870003411 D-alanine--poly(phosphoribitol) ligase subunit 2; Validated; Region: PRK05087 416870003412 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 416870003413 DltD N-terminal region; Region: DltD_N; pfam04915 416870003414 DltD central region; Region: DltD_M; pfam04918 416870003415 DltD C-terminal region; Region: DltD_C; pfam04914 416870003416 magnesium-transporting ATPase; Provisional; Region: PRK15122 416870003417 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 416870003418 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 416870003419 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 416870003420 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 416870003421 Soluble P-type ATPase [General function prediction only]; Region: COG4087 416870003422 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 416870003423 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 416870003424 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 416870003425 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 416870003426 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 416870003427 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 416870003428 THF binding site; other site 416870003429 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 416870003430 substrate binding site [chemical binding]; other site 416870003431 THF binding site; other site 416870003432 zinc-binding site [ion binding]; other site 416870003433 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 416870003434 FAD binding site [chemical binding]; other site 416870003435 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroG; cl17260 416870003436 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 416870003437 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416870003438 Helix-turn-helix domain; Region: HTH_28; pfam13518 416870003439 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416870003440 Transposase; Region: HTH_Tnp_1; cl17663 416870003441 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416870003442 Transposase; Region: HTH_Tnp_1; pfam01527 416870003443 putative transposase OrfB; Reviewed; Region: PHA02517 416870003444 HTH-like domain; Region: HTH_21; pfam13276 416870003445 Integrase core domain; Region: rve; pfam00665 416870003446 Integrase core domain; Region: rve_3; pfam13683 416870003447 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416870003448 Transposase; Region: HTH_Tnp_1; pfam01527 416870003449 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 416870003450 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 416870003451 ligand binding site [chemical binding]; other site 416870003452 flexible hinge region; other site 416870003453 Predicted membrane protein [Function unknown]; Region: COG2364 416870003454 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 416870003455 NAD binding site [chemical binding]; other site 416870003456 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 416870003457 DNA-binding site [nucleotide binding]; DNA binding site 416870003458 RNA-binding motif; other site 416870003459 Glucosamine 6-phosphate synthetase, contains amidotransferase and phosphosugar isomerase domains [Cell envelope biogenesis, outer membrane]; Region: GlmS; COG0449 416870003460 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 416870003461 dimer interface [polypeptide binding]; other site 416870003462 active site 416870003463 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 416870003464 dimer interface [polypeptide binding]; other site 416870003465 active site 416870003466 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 416870003467 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 416870003468 nucleotide binding site [chemical binding]; other site 416870003469 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 416870003470 N-terminal Early set domain associated with the catalytic domain of cellulase; Region: E_set_Cellulase_N; cd02850 416870003471 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 416870003472 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 416870003473 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 416870003474 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 416870003475 active site 416870003476 motif I; other site 416870003477 motif II; other site 416870003478 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 416870003479 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 416870003480 dimerization interface [polypeptide binding]; other site 416870003481 putative DNA binding site [nucleotide binding]; other site 416870003482 putative Zn2+ binding site [ion binding]; other site 416870003483 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 416870003484 arsenical pump-driving ATPase; Region: arsen_driv_ArsA; TIGR04291 416870003485 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 416870003486 P loop; other site 416870003487 Nucleotide binding site [chemical binding]; other site 416870003488 DTAP/Switch II; other site 416870003489 Switch I; other site 416870003490 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 416870003491 P loop; other site 416870003492 Nucleotide binding site [chemical binding]; other site 416870003493 DTAP/Switch II; other site 416870003494 Switch I; other site 416870003495 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 416870003496 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 416870003497 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 416870003498 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 416870003499 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 416870003500 active site residue [active] 416870003501 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 416870003502 arsenical-resistance protein; Region: acr3; TIGR00832 416870003503 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 416870003504 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 416870003505 DNA binding residues [nucleotide binding] 416870003506 putative dimer interface [polypeptide binding]; other site 416870003507 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 416870003508 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 416870003509 active site 416870003510 catalytic tetrad [active] 416870003511 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 416870003512 DNA-binding site [nucleotide binding]; DNA binding site 416870003513 RNA-binding motif; other site 416870003514 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 416870003515 DNA-binding site [nucleotide binding]; DNA binding site 416870003516 RNA-binding motif; other site 416870003517 Predicted membrane protein [Function unknown]; Region: COG2261 416870003518 Small integral membrane protein (DUF2273); Region: DUF2273; cl11575 416870003519 Asp23 family; Region: Asp23; cl00574 416870003520 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 416870003521 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 416870003522 Walker A motif; other site 416870003523 ATP binding site [chemical binding]; other site 416870003524 Walker B motif; other site 416870003525 arginine finger; other site 416870003526 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 416870003527 Integrase core domain; Region: rve; pfam00665 416870003528 Asp23 family; Region: Asp23; cl00574 416870003529 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416870003530 Transposase; Region: HTH_Tnp_1; pfam01527 416870003531 HTH-like domain; Region: HTH_21; pfam13276 416870003532 Integrase core domain; Region: rve; pfam00665 416870003533 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 416870003534 oligomer interface [polypeptide binding]; other site 416870003535 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 416870003536 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 416870003537 active site 416870003538 DNA binding site [nucleotide binding] 416870003539 Int/Topo IB signature motif; other site 416870003540 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 416870003541 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 416870003542 active site 416870003543 DNA binding site [nucleotide binding] 416870003544 Int/Topo IB signature motif; other site 416870003545 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 416870003546 Glucose inhibited division protein A; Region: GIDA; pfam01134 416870003547 DNA topoisomerase I; Validated; Region: PRK05582 416870003548 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 416870003549 active site 416870003550 interdomain interaction site; other site 416870003551 putative metal-binding site [ion binding]; other site 416870003552 nucleotide binding site [chemical binding]; other site 416870003553 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 416870003554 domain I; other site 416870003555 DNA binding groove [nucleotide binding] 416870003556 phosphate binding site [ion binding]; other site 416870003557 domain II; other site 416870003558 domain III; other site 416870003559 nucleotide binding site [chemical binding]; other site 416870003560 catalytic site [active] 416870003561 domain IV; other site 416870003562 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 416870003563 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 416870003564 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 416870003565 DNA protecting protein DprA; Region: dprA; TIGR00732 416870003566 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 416870003567 homotrimer interaction site [polypeptide binding]; other site 416870003568 putative active site [active] 416870003569 alpha-acetolactate decarboxylase; Region: acetolac_decarb; TIGR01252 416870003570 threonine dehydratase; Validated; Region: PRK08639 416870003571 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 416870003572 tetramer interface [polypeptide binding]; other site 416870003573 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416870003574 catalytic residue [active] 416870003575 C-terminal regulatory domain of Threonine dehydratase; Region: Thr_dehydrat_C; pfam00585 416870003576 ketol-acid reductoisomerase; Provisional; Region: PRK05479 416870003577 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 416870003578 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 416870003579 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 416870003580 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 416870003581 putative valine binding site [chemical binding]; other site 416870003582 dimer interface [polypeptide binding]; other site 416870003583 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 416870003584 acetolactate synthase catalytic subunit; Reviewed; Region: PRK07282 416870003585 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 416870003586 PYR/PP interface [polypeptide binding]; other site 416870003587 dimer interface [polypeptide binding]; other site 416870003588 TPP binding site [chemical binding]; other site 416870003589 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 416870003590 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 416870003591 TPP-binding site [chemical binding]; other site 416870003592 dimer interface [polypeptide binding]; other site 416870003593 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 416870003594 ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]; Region: ModF; COG1119 416870003595 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 416870003596 Walker A/P-loop; other site 416870003597 ATP binding site [chemical binding]; other site 416870003598 Q-loop/lid; other site 416870003599 ABC transporter signature motif; other site 416870003600 Walker B; other site 416870003601 D-loop; other site 416870003602 H-loop/switch region; other site 416870003603 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 416870003604 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 416870003605 substrate binding site [chemical binding]; other site 416870003606 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 416870003607 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 416870003608 substrate binding site [chemical binding]; other site 416870003609 ligand binding site [chemical binding]; other site 416870003610 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 416870003611 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 416870003612 active site residue [active] 416870003613 Protein of unknown function (DUF3650); Region: DUF3650; pfam12368 416870003614 histidinol phosphate phosphatase, HisJ family; Region: hisJ_fam; TIGR01856 416870003615 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 416870003616 active site 416870003617 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 416870003618 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 416870003619 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 416870003620 metal binding site [ion binding]; metal-binding site 416870003621 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 416870003622 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 416870003623 substrate binding site [chemical binding]; other site 416870003624 glutamase interaction surface [polypeptide binding]; other site 416870003625 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 416870003626 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 416870003627 catalytic residues [active] 416870003628 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 416870003629 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 416870003630 putative active site [active] 416870003631 oxyanion strand; other site 416870003632 catalytic triad [active] 416870003633 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...; Region: APH; cd05150 416870003634 active site 416870003635 ATP binding site [chemical binding]; other site 416870003636 Phosphotransferase enzyme family; Region: APH; pfam01636 416870003637 antibiotic binding site [chemical binding]; other site 416870003638 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 416870003639 putative active site pocket [active] 416870003640 4-fold oligomerization interface [polypeptide binding]; other site 416870003641 metal binding residues [ion binding]; metal-binding site 416870003642 3-fold/trimer interface [polypeptide binding]; other site 416870003643 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 416870003644 histidinol dehydrogenase; Region: hisD; TIGR00069 416870003645 NAD binding site [chemical binding]; other site 416870003646 dimerization interface [polypeptide binding]; other site 416870003647 product binding site; other site 416870003648 substrate binding site [chemical binding]; other site 416870003649 zinc binding site [ion binding]; other site 416870003650 catalytic residues [active] 416870003651 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 416870003652 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 416870003653 ATP phosphoribosyltransferase, regulatory subunit; Region: hisZ_biosyn_reg; TIGR00443 416870003654 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 416870003655 dimer interface [polypeptide binding]; other site 416870003656 motif 1; other site 416870003657 active site 416870003658 motif 2; other site 416870003659 motif 3; other site 416870003660 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 416870003661 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 416870003662 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416870003663 homodimer interface [polypeptide binding]; other site 416870003664 catalytic residue [active] 416870003665 Protein of unknown function (DUF1295); Region: DUF1295; cl17837 416870003666 Protein of unknown function (DUF1295); Region: DUF1295; cl17837 416870003667 Predicted kinase related to dihydroxyacetone kinase [General function prediction only]; Region: COG1461 416870003668 DAK2 domain; Region: Dak2; pfam02734 416870003669 EDD domain protein, DegV family; Region: DegV; TIGR00762 416870003670 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 416870003671 Predicted membrane protein [Function unknown]; Region: COG4852 416870003672 TspO/MBR family; Region: TspO_MBR; pfam03073 416870003673 ribonuclease R; Region: RNase_R; TIGR02063 416870003674 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 416870003675 RNB domain; Region: RNB; pfam00773 416870003676 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 416870003677 RNA binding site [nucleotide binding]; other site 416870003678 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 416870003679 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 416870003680 non-specific DNA binding site [nucleotide binding]; other site 416870003681 salt bridge; other site 416870003682 sequence-specific DNA binding site [nucleotide binding]; other site 416870003683 legume lectins; Region: lectin_L-type; cl14058 416870003684 carbohydrate binding site [chemical binding]; other site 416870003685 metal binding site [ion binding]; metal-binding site 416870003686 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 416870003687 domain interaction interfaces [polypeptide binding]; other site 416870003688 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 416870003689 domain interaction interfaces [polypeptide binding]; other site 416870003690 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 416870003691 domain interaction interfaces [polypeptide binding]; other site 416870003692 acetolactate synthase; Reviewed; Region: PRK08617 416870003693 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 416870003694 PYR/PP interface [polypeptide binding]; other site 416870003695 dimer interface [polypeptide binding]; other site 416870003696 TPP binding site [chemical binding]; other site 416870003697 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 416870003698 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 416870003699 TPP-binding site [chemical binding]; other site 416870003700 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 416870003701 binding surface 416870003702 TPR motif; other site 416870003703 Tetratricopeptide repeat; Region: TPR_12; pfam13424 416870003704 Tetratricopeptide repeat; Region: TPR_12; pfam13424 416870003705 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 416870003706 binding surface 416870003707 TPR motif; other site 416870003708 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 416870003709 Domain of unknown function DUF20; Region: UPF0118; pfam01594 416870003710 Methyltransferase domain; Region: Methyltransf_31; pfam13847 416870003711 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 416870003712 S-adenosylmethionine binding site [chemical binding]; other site 416870003713 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 416870003714 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 416870003715 TRAM domain; Region: TRAM; cl01282 416870003716 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 416870003717 S-adenosylmethionine binding site [chemical binding]; other site 416870003718 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 416870003719 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 416870003720 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 416870003721 putative active site [active] 416870003722 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 416870003723 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 416870003724 putative active site cavity [active] 416870003725 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 416870003726 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 416870003727 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 416870003728 Transposase, Mutator family; Region: Transposase_mut; pfam00872 416870003729 MULE transposase domain; Region: MULE; pfam10551 416870003730 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 416870003731 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 416870003732 active site 416870003733 Endoglucanase [Carbohydrate transport and metabolism]; Region: BglC; COG2730 416870003734 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 416870003735 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 416870003736 Major Facilitator Superfamily; Region: MFS_1; pfam07690 416870003737 putative substrate translocation pore; other site 416870003738 Transposase, Mutator family; Region: Transposase_mut; pfam00872 416870003739 MULE transposase domain; Region: MULE; pfam10551 416870003740 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 416870003741 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 416870003742 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 416870003743 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 416870003744 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 416870003745 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 416870003746 dimer interface [polypeptide binding]; other site 416870003747 conserved gate region; other site 416870003748 putative PBP binding loops; other site 416870003749 ABC-ATPase subunit interface; other site 416870003750 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 416870003751 dimer interface [polypeptide binding]; other site 416870003752 conserved gate region; other site 416870003753 putative PBP binding loops; other site 416870003754 ABC-ATPase subunit interface; other site 416870003755 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 416870003756 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416870003757 Walker A/P-loop; other site 416870003758 ATP binding site [chemical binding]; other site 416870003759 Q-loop/lid; other site 416870003760 ABC transporter signature motif; other site 416870003761 Walker B; other site 416870003762 D-loop; other site 416870003763 H-loop/switch region; other site 416870003764 TOBE domain; Region: TOBE_2; pfam08402 416870003765 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 416870003766 FAD binding domain; Region: FAD_binding_4; pfam01565 416870003767 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 416870003768 homoserine kinase; Provisional; Region: PRK01212 416870003769 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 416870003770 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 416870003771 homoserine dehydrogenase; Provisional; Region: PRK06349 416870003772 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 416870003773 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 416870003774 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 416870003775 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 416870003776 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 416870003777 Substrate-binding site [chemical binding]; other site 416870003778 Substrate specificity [chemical binding]; other site 416870003779 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 416870003780 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 416870003781 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 416870003782 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 416870003783 nudix motif; other site 416870003784 dihydropteroate synthase; Region: DHPS; TIGR01496 416870003785 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 416870003786 substrate binding pocket [chemical binding]; other site 416870003787 dimer interface [polypeptide binding]; other site 416870003788 inhibitor binding site; inhibition site 416870003789 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 416870003790 catalytic center binding site [active] 416870003791 ATP binding site [chemical binding]; other site 416870003792 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 416870003793 GTP cyclohydrolase I; Provisional; Region: PLN03044 416870003794 active site 416870003795 Dihydroneopterin aldolase [Coenzyme metabolism]; Region: FolB; COG1539 416870003796 active site 416870003797 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 416870003798 G1 box; other site 416870003799 GTP/Mg2+ binding site [chemical binding]; other site 416870003800 Switch I region; other site 416870003801 G2 box; other site 416870003802 G3 box; other site 416870003803 Switch II region; other site 416870003804 G4 box; other site 416870003805 G5 box; other site 416870003806 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 416870003807 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 416870003808 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 416870003809 Walker A motif; other site 416870003810 ATP binding site [chemical binding]; other site 416870003811 Walker B motif; other site 416870003812 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 416870003813 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 416870003814 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 416870003815 folate binding site [chemical binding]; other site 416870003816 NADP+ binding site [chemical binding]; other site 416870003817 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 416870003818 xanthine permease; Region: pbuX; TIGR03173 416870003819 Sulfate transporter family; Region: Sulfate_transp; pfam00916 416870003820 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 416870003821 active site 416870003822 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 416870003823 non-specific DNA binding site [nucleotide binding]; other site 416870003824 salt bridge; other site 416870003825 sequence-specific DNA binding site [nucleotide binding]; other site 416870003826 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 416870003827 hypothetical protein; Provisional; Region: PRK14013 416870003828 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 416870003829 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 416870003830 putative metal binding site [ion binding]; other site 416870003831 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 416870003832 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 416870003833 putative metal binding site [ion binding]; other site 416870003834 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 416870003835 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 416870003836 putative metal binding site [ion binding]; other site 416870003837 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 416870003838 Domain of unknown function (DUF4356); Region: DUF4356; pfam14266 416870003839 mannosyl-3-phosphoglycerate phosphatase; Reviewed; Region: PRK00192 416870003840 Protein of unknown function (DUF2983); Region: DUF2983; pfam11202 416870003841 Protein of unknown function (DUF3706); Region: DUF3706; pfam12500 416870003842 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 416870003843 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 416870003844 non-specific DNA binding site [nucleotide binding]; other site 416870003845 salt bridge; other site 416870003846 sequence-specific DNA binding site [nucleotide binding]; other site 416870003847 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 416870003848 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 416870003849 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 416870003850 active site 416870003851 catalytic residues [active] 416870003852 DNA binding site [nucleotide binding] 416870003853 Int/Topo IB signature motif; other site 416870003854 putative transposase OrfB; Reviewed; Region: PHA02517 416870003855 HTH-like domain; Region: HTH_21; pfam13276 416870003856 Integrase core domain; Region: rve; pfam00665 416870003857 Integrase core domain; Region: rve_3; pfam13683 416870003858 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416870003859 Transposase; Region: HTH_Tnp_1; pfam01527 416870003860 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 416870003861 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 416870003862 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 416870003863 putative active site [active] 416870003864 putative NTP binding site [chemical binding]; other site 416870003865 putative nucleic acid binding site [nucleotide binding]; other site 416870003866 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 416870003867 Type II intron maturase; Region: Intron_maturas2; pfam01348 416870003868 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 416870003869 Protein of unknown function (DUF3990); Region: DUF3990; pfam13151 416870003870 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 416870003871 Toprim-like; Region: Toprim_2; pfam13155 416870003872 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 416870003873 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 416870003874 CHAP domain; Region: CHAP; pfam05257 416870003875 Domain of unknown function DUF87; Region: DUF87; pfam01935 416870003876 AAA-like domain; Region: AAA_10; pfam12846 416870003877 L-rhamnose-proton symport protein (RhaT); Region: RhaT; cl05728 416870003878 Glucan-binding protein C; Region: GbpC; pfam08363 416870003879 adhesin isopeptide-forming domain, sspB-C2 type; Region: isopep_sspB_C2; TIGR04228 416870003880 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 416870003881 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 416870003882 HSP70 interaction site [polypeptide binding]; other site 416870003883 AAA domain; Region: AAA_31; pfam13614 416870003884 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 416870003885 P-loop; other site 416870003886 Magnesium ion binding site [ion binding]; other site 416870003887 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 416870003888 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 416870003889 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 416870003890 active site 416870003891 Predicted membrane protein [Function unknown]; Region: COG4478 416870003892 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 416870003893 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 416870003894 active site 416870003895 motif I; other site 416870003896 motif II; other site 416870003897 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 416870003898 Acyl-ACP thioesterase [Lipid metabolism]; Region: FatA; COG3884 416870003899 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 416870003900 active site 416870003901 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 416870003902 active site 2 [active] 416870003903 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 416870003904 catalytic motif [active] 416870003905 Zn binding site [ion binding]; other site 416870003906 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 416870003907 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 416870003908 active site 416870003909 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 416870003910 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 416870003911 FeS/SAM binding site; other site 416870003912 HemN C-terminal domain; Region: HemN_C; pfam06969 416870003913 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 416870003914 ParB-like nuclease domain; Region: ParB; smart00470 416870003915 Predicted phosphoadenosine phosphosulfate sulfotransferase [General function prediction only]; Region: COG3969 416870003916 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 416870003917 Active Sites [active] 416870003918 Domain of unknown function (DUF3440); Region: DUF3440; pfam11922 416870003919 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 416870003920 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 416870003921 active site 416870003922 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 416870003923 triosephosphate isomerase; Provisional; Region: PRK14565 416870003924 substrate binding site [chemical binding]; other site 416870003925 dimer interface [polypeptide binding]; other site 416870003926 catalytic triad [active] 416870003927 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 416870003928 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 416870003929 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 416870003930 putative active site [active] 416870003931 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 416870003932 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 416870003933 active site turn [active] 416870003934 phosphorylation site [posttranslational modification] 416870003935 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 416870003936 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 416870003937 HPr interaction site; other site 416870003938 glycerol kinase (GK) interaction site [polypeptide binding]; other site 416870003939 active site 416870003940 phosphorylation site [posttranslational modification] 416870003941 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 416870003942 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 416870003943 putative active site [active] 416870003944 Uncharacterized conserved protein [Function unknown]; Region: COG3589 416870003945 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 416870003946 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 416870003947 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 416870003948 dimer interface [polypeptide binding]; other site 416870003949 tetramer (dimer of dimers) interface [polypeptide binding]; other site 416870003950 NAD binding site [chemical binding]; other site 416870003951 substrate binding site [chemical binding]; other site 416870003952 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 416870003953 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 416870003954 active site 416870003955 Riboflavin kinase; Region: Flavokinase; smart00904 416870003956 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK02484 416870003957 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 416870003958 RNA binding site [nucleotide binding]; other site 416870003959 active site 416870003960 Bacterial protein of unknown function (DUF916); Region: DUF916; pfam06030 416870003961 putative transposase OrfB; Reviewed; Region: PHA02517 416870003962 HTH-like domain; Region: HTH_21; pfam13276 416870003963 Integrase core domain; Region: rve; pfam00665 416870003964 Integrase core domain; Region: rve_3; pfam13683 416870003965 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416870003966 Transposase; Region: HTH_Tnp_1; pfam01527 416870003967 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 416870003968 fumarate reductase flavoprotein subunit; Validated; Region: PRK06481 416870003969 L-aspartate oxidase; Provisional; Region: PRK06175 416870003970 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 416870003971 dimer interface [polypeptide binding]; other site 416870003972 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 416870003973 putative active site [active] 416870003974 nucleotide binding site [chemical binding]; other site 416870003975 nudix motif; other site 416870003976 putative metal binding site [ion binding]; other site 416870003977 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 416870003978 Part of AAA domain; Region: AAA_19; pfam13245 416870003979 Family description; Region: UvrD_C_2; pfam13538 416870003980 Protein of unknown function (DUF998); Region: DUF998; pfam06197 416870003981 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 416870003982 Uncharacterized conserved protein [Function unknown]; Region: COG2898 416870003983 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 416870003984 Lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]; Region: LysU; COG1190 416870003985 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 416870003986 dimer interface [polypeptide binding]; other site 416870003987 putative anticodon binding site; other site 416870003988 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 416870003989 active site 416870003990 catalytic site [active] 416870003991 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 416870003992 ApbE family; Region: ApbE; pfam02424 416870003993 DNA gyrase subunit A; Validated; Region: PRK05560 416870003994 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 416870003995 CAP-like domain; other site 416870003996 active site 416870003997 primary dimer interface [polypeptide binding]; other site 416870003998 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 416870003999 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 416870004000 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 416870004001 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 416870004002 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 416870004003 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 416870004004 Amino acid permease; Region: AA_permease_2; pfam13520 416870004005 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 416870004006 NADH(P)-binding; Region: NAD_binding_10; pfam13460 416870004007 NAD(P) binding site [chemical binding]; other site 416870004008 putative active site [active] 416870004009 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 416870004010 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 416870004011 nucleotide binding site [chemical binding]; other site 416870004012 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 416870004013 beta-galactosidase; Region: BGL; TIGR03356 416870004014 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 416870004015 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 416870004016 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 416870004017 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 416870004018 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 416870004019 Walker A/P-loop; other site 416870004020 ATP binding site [chemical binding]; other site 416870004021 Q-loop/lid; other site 416870004022 ABC transporter signature motif; other site 416870004023 Walker B; other site 416870004024 D-loop; other site 416870004025 H-loop/switch region; other site 416870004026 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 416870004027 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 416870004028 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 416870004029 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 416870004030 dimer interface [polypeptide binding]; other site 416870004031 conserved gate region; other site 416870004032 putative PBP binding loops; other site 416870004033 ABC-ATPase subunit interface; other site 416870004034 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 416870004035 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 416870004036 dimer interface [polypeptide binding]; other site 416870004037 conserved gate region; other site 416870004038 putative PBP binding loops; other site 416870004039 ABC-ATPase subunit interface; other site 416870004040 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 416870004041 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 416870004042 Walker A/P-loop; other site 416870004043 ATP binding site [chemical binding]; other site 416870004044 Q-loop/lid; other site 416870004045 ABC transporter signature motif; other site 416870004046 Walker B; other site 416870004047 D-loop; other site 416870004048 H-loop/switch region; other site 416870004049 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 416870004050 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 416870004051 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 416870004052 substrate binding site [chemical binding]; other site 416870004053 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 416870004054 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 416870004055 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 416870004056 putative active site [active] 416870004057 GTP-binding protein LepA; Provisional; Region: PRK05433 416870004058 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 416870004059 G1 box; other site 416870004060 putative GEF interaction site [polypeptide binding]; other site 416870004061 GTP/Mg2+ binding site [chemical binding]; other site 416870004062 Switch I region; other site 416870004063 G2 box; other site 416870004064 G3 box; other site 416870004065 Switch II region; other site 416870004066 G4 box; other site 416870004067 G5 box; other site 416870004068 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 416870004069 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 416870004070 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 416870004071 Alpha-acetolactate decarboxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: AlsD; COG3527 416870004072 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 416870004073 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 416870004074 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 416870004075 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 416870004076 catalytic triad [active] 416870004077 FtsX-like permease family; Region: FtsX; pfam02687 416870004078 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 416870004079 FtsX-like permease family; Region: FtsX; pfam02687 416870004080 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 416870004081 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 416870004082 Walker A/P-loop; other site 416870004083 ATP binding site [chemical binding]; other site 416870004084 Q-loop/lid; other site 416870004085 ABC transporter signature motif; other site 416870004086 Walker B; other site 416870004087 D-loop; other site 416870004088 H-loop/switch region; other site 416870004089 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 416870004090 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 416870004091 homodimer interface [polypeptide binding]; other site 416870004092 NAD binding pocket [chemical binding]; other site 416870004093 ATP binding pocket [chemical binding]; other site 416870004094 Mg binding site [ion binding]; other site 416870004095 active-site loop [active] 416870004096 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 416870004097 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416870004098 Coenzyme A binding pocket [chemical binding]; other site 416870004099 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 416870004100 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 416870004101 active site 416870004102 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 416870004103 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 416870004104 active site 416870004105 (T/H)XGH motif; other site 416870004106 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 416870004107 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 416870004108 putative Cl- selectivity filter; other site 416870004109 putative pore gating glutamate residue; other site 416870004110 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4224 416870004111 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 416870004112 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 416870004113 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 416870004114 glycyl-tRNA synthetase subunit alpha; Validated; Region: glyQ; PRK09348 416870004115 motif 1; other site 416870004116 dimer interface [polypeptide binding]; other site 416870004117 active site 416870004118 motif 2; other site 416870004119 motif 3; other site 416870004120 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 416870004121 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 416870004122 active site 416870004123 metal binding site [ion binding]; metal-binding site 416870004124 hypothetical protein; Provisional; Region: PRK14013 416870004125 VanZ like family; Region: VanZ; pfam04892 416870004126 Uncharacterized conserved protein [Function unknown]; Region: COG1739 416870004127 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 416870004128 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 416870004129 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 416870004130 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 416870004131 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 416870004132 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3575 416870004133 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 416870004134 metal-binding heat shock protein; Provisional; Region: PRK00016 416870004135 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 416870004136 nudix motif; other site 416870004137 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 416870004138 PhoH-like protein; Region: PhoH; pfam02562 416870004139 manganese transport protein MntH; Reviewed; Region: PRK00701 416870004140 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 416870004141 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 416870004142 Predicted ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG2868 416870004143 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 416870004144 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 416870004145 Predicted membrane protein [Function unknown]; Region: COG3371 416870004146 Protein of unknown function (DUF998); Region: DUF998; pfam06197 416870004147 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 416870004148 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 416870004149 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 416870004150 Zn2+ binding site [ion binding]; other site 416870004151 Mg2+ binding site [ion binding]; other site 416870004152 sugar phosphate phosphatase; Provisional; Region: PRK10513 416870004153 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 416870004154 active site 416870004155 motif I; other site 416870004156 motif II; other site 416870004157 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 416870004158 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4918 416870004159 Uncharacterized conserved protein [Function unknown]; Region: COG0327 416870004160 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 416870004161 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 416870004162 Family of unknown function (DUF633); Region: DUF633; pfam04816 416870004163 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 416870004164 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 416870004165 minor groove reading motif; other site 416870004166 helix-hairpin-helix signature motif; other site 416870004167 substrate binding pocket [chemical binding]; other site 416870004168 active site 416870004169 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 416870004170 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 416870004171 DnaD and phage-associated domain; Region: DnaD_dom; TIGR01446 416870004172 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 416870004173 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 416870004174 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 416870004175 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 416870004176 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 416870004177 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 416870004178 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 416870004179 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 416870004180 active site 416870004181 active site 416870004182 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 416870004183 Helix-turn-helix domain; Region: HTH_38; pfam13936 416870004184 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 416870004185 Sel1-like repeats; Region: SEL1; smart00671 416870004186 Sel1 repeat; Region: Sel1; cl02723 416870004187 dihydroorotase; Validated; Region: pyrC; PRK09357 416870004188 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 416870004189 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 416870004190 active site 416870004191 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 416870004192 active site 416870004193 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 416870004194 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 416870004195 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 416870004196 ABC transporter; Region: ABC_tran_2; pfam12848 416870004197 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 416870004198 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 416870004199 ArsC family; Region: ArsC; pfam03960 416870004200 putative catalytic residues [active] 416870004201 thiol/disulfide switch; other site 416870004202 AT-rich DNA-binding protein [General function prediction only]; Region: COG2344 416870004203 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 416870004204 CoA binding domain; Region: CoA_binding; pfam02629 416870004205 hypothetical protein; Reviewed; Region: PRK00024 416870004206 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 416870004207 MPN+ (JAMM) motif; other site 416870004208 Zinc-binding site [ion binding]; other site 416870004209 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 416870004210 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 416870004211 glutaminase active site [active] 416870004212 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 416870004213 dimer interface [polypeptide binding]; other site 416870004214 active site 416870004215 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 416870004216 dimer interface [polypeptide binding]; other site 416870004217 active site 416870004218 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 416870004219 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 416870004220 active site 416870004221 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 416870004222 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 416870004223 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 416870004224 dimer interface [polypeptide binding]; other site 416870004225 phosphorylation site [posttranslational modification] 416870004226 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 416870004227 ATP binding site [chemical binding]; other site 416870004228 Mg2+ binding site [ion binding]; other site 416870004229 G-X-G motif; other site 416870004230 Predicted membrane protein (DUF2127); Region: DUF2127; cl01785 416870004231 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 416870004232 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 416870004233 active site 416870004234 phosphorylation site [posttranslational modification] 416870004235 intermolecular recognition site; other site 416870004236 dimerization interface [polypeptide binding]; other site 416870004237 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 416870004238 DNA binding site [nucleotide binding] 416870004239 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 416870004240 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 416870004241 Ligand binding site; other site 416870004242 Putative Catalytic site; other site 416870004243 DXD motif; other site 416870004244 conserved hypothetical integral membrane protein; Region: TIGR03766 416870004245 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1963 416870004246 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 416870004247 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 416870004248 RNA binding surface [nucleotide binding]; other site 416870004249 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 416870004250 active site 416870004251 lipoprotein signal peptidase; Provisional; Region: PRK14797 416870004252 HTH domain; Region: HTH_11; pfam08279 416870004253 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 416870004254 homopentamer interface [polypeptide binding]; other site 416870004255 active site 416870004256 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 416870004257 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 416870004258 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 416870004259 dimerization interface [polypeptide binding]; other site 416870004260 active site 416870004261 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 416870004262 Lumazine binding domain; Region: Lum_binding; pfam00677 416870004263 Lumazine binding domain; Region: Lum_binding; pfam00677 416870004264 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 416870004265 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 416870004266 catalytic motif [active] 416870004267 Zn binding site [ion binding]; other site 416870004268 RibD C-terminal domain; Region: RibD_C; cl17279 416870004269 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 416870004270 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 416870004271 oligomer interface [polypeptide binding]; other site 416870004272 Cl binding site [ion binding]; other site 416870004273 DNA topoisomerase IV, A subunit, Gram-positive; Region: parC_Gpos; TIGR01061 416870004274 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 416870004275 CAP-like domain; other site 416870004276 active site 416870004277 primary dimer interface [polypeptide binding]; other site 416870004278 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 416870004279 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 416870004280 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416870004281 Coenzyme A binding pocket [chemical binding]; other site 416870004282 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 416870004283 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 416870004284 active site 416870004285 catalytic site [active] 416870004286 substrate binding site [chemical binding]; other site 416870004287 Isochorismatase family; Region: Isochorismatase; pfam00857 416870004288 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 416870004289 catalytic triad [active] 416870004290 conserved cis-peptide bond; other site 416870004291 DNA topoisomerase IV, B subunit, Gram-positive; Region: parE_Gpos; TIGR01058 416870004292 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 416870004293 Mg2+ binding site [ion binding]; other site 416870004294 G-X-G motif; other site 416870004295 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 416870004296 anchoring element; other site 416870004297 dimer interface [polypeptide binding]; other site 416870004298 ATP binding site [chemical binding]; other site 416870004299 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 416870004300 active site 416870004301 putative metal-binding site [ion binding]; other site 416870004302 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 416870004303 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 416870004304 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 416870004305 catalytic residues [active] 416870004306 Protein involved in ribonucleotide reduction [Nucleotide transport and metabolism]; Region: NrdI; COG1780 416870004307 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07306 416870004308 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 416870004309 Class I ribonucleotide reductase; Region: RNR_I; cd01679 416870004310 active site 416870004311 dimer interface [polypeptide binding]; other site 416870004312 catalytic residues [active] 416870004313 effector binding site; other site 416870004314 R2 peptide binding site; other site 416870004315 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 416870004316 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 416870004317 dimer interface [polypeptide binding]; other site 416870004318 putative radical transfer pathway; other site 416870004319 diiron center [ion binding]; other site 416870004320 tyrosyl radical; other site 416870004321 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 416870004322 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 416870004323 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 416870004324 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416870004325 Walker A/P-loop; other site 416870004326 ATP binding site [chemical binding]; other site 416870004327 Q-loop/lid; other site 416870004328 ABC transporter signature motif; other site 416870004329 Walker B; other site 416870004330 D-loop; other site 416870004331 H-loop/switch region; other site 416870004332 peptide chain release factor 2; Validated; Region: prfB; PRK00578 416870004333 This domain is found in peptide chain release factors; Region: PCRF; smart00937 416870004334 RF-1 domain; Region: RF-1; pfam00472 416870004335 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 416870004336 putative phosphoesterase; Region: acc_ester; TIGR03729 416870004337 hypothetical protein; Provisional; Region: PRK13662 416870004338 Formate/nitrite family of transporters [Inorganic ion transport and metabolism]; Region: FocA; COG2116 416870004339 Putative exporter of polyketide antibiotics [Cell envelope biogenesis, outer membrane]; Region: TnrB3; COG3559 416870004340 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 416870004341 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 416870004342 Walker A/P-loop; other site 416870004343 ATP binding site [chemical binding]; other site 416870004344 Q-loop/lid; other site 416870004345 ABC transporter signature motif; other site 416870004346 Walker B; other site 416870004347 D-loop; other site 416870004348 H-loop/switch region; other site 416870004349 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 416870004350 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 416870004351 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 416870004352 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 416870004353 Family of CofD-like proteins and proteins related to YvcK; Region: CofD_YvcK; cd07044 416870004354 dimer interface [polypeptide binding]; other site 416870004355 phosphate binding site [ion binding]; other site 416870004356 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 416870004357 AAA domain; Region: AAA_18; pfam13238 416870004358 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 416870004359 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 416870004360 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 416870004361 putative active site [active] 416870004362 catalytic site [active] 416870004363 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 416870004364 putative active site [active] 416870004365 catalytic site [active] 416870004366 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 416870004367 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 416870004368 ligand binding site [chemical binding]; other site 416870004369 flexible hinge region; other site 416870004370 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 416870004371 putative switch regulator; other site 416870004372 non-specific DNA interactions [nucleotide binding]; other site 416870004373 DNA binding site [nucleotide binding] 416870004374 sequence specific DNA binding site [nucleotide binding]; other site 416870004375 putative cAMP binding site [chemical binding]; other site 416870004376 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 416870004377 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 416870004378 Soluble P-type ATPase [General function prediction only]; Region: COG4087 416870004379 Protein of unknown function (DUF805); Region: DUF805; pfam05656 416870004380 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416870004381 Transposase; Region: HTH_Tnp_1; pfam01527 416870004382 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 416870004383 HTH-like domain; Region: HTH_21; pfam13276 416870004384 Integrase core domain; Region: rve; pfam00665 416870004385 Integrase core domain; Region: rve_3; pfam13683 416870004386 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416870004387 Helix-turn-helix domain; Region: HTH_28; pfam13518 416870004388 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416870004389 Transposase; Region: HTH_Tnp_1; cl17663 416870004390 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 416870004391 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 416870004392 active site 416870004393 phosphorylation site [posttranslational modification] 416870004394 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 416870004395 active site 416870004396 P-loop; other site 416870004397 phosphorylation site [posttranslational modification] 416870004398 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 416870004399 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 416870004400 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 416870004401 putative substrate binding site [chemical binding]; other site 416870004402 putative ATP binding site [chemical binding]; other site 416870004403 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 416870004404 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 416870004405 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 416870004406 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 416870004407 M20 Peptidase Aminoacyclase-1 YxeP-like proteins, including YxeP, YtnL, YjiB and HipO2; Region: M20_Acy1_YxeP_like; cd05669 416870004408 metal binding site [ion binding]; metal-binding site 416870004409 dimer interface [polypeptide binding]; other site 416870004410 Myosin-crossreactive antigen [Function unknown]; Region: COG4716 416870004411 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 416870004412 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 416870004413 nucleotide binding site [chemical binding]; other site 416870004414 NEF interaction site [polypeptide binding]; other site 416870004415 SBD interface [polypeptide binding]; other site 416870004416 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 416870004417 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 416870004418 dimer interface [polypeptide binding]; other site 416870004419 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 416870004420 Transcriptional regulator of heat shock gene [Transcription]; Region: HrcA; COG1420 416870004421 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 416870004422 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 416870004423 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 416870004424 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 416870004425 catalytic core [active] 416870004426 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 416870004427 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 416870004428 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 416870004429 1,4-dihydroxy-2-naphthoate octaprenyltransferase [Coenzyme metabolism]; Region: MenA; COG1575 416870004430 UbiA prenyltransferase family; Region: UbiA; pfam01040 416870004431 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 416870004432 putative catalytic site [active] 416870004433 putative metal binding site [ion binding]; other site 416870004434 putative phosphate binding site [ion binding]; other site 416870004435 Isochorismatase family; Region: Isochorismatase; pfam00857 416870004436 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 416870004437 catalytic triad [active] 416870004438 conserved cis-peptide bond; other site 416870004439 ribonuclease R; Region: RNase_R; TIGR02063 416870004440 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 416870004441 RNB domain; Region: RNB; pfam00773 416870004442 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 416870004443 RNA binding site [nucleotide binding]; other site 416870004444 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 416870004445 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 416870004446 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 416870004447 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 416870004448 Protein of unknown function (DUF4059); Region: DUF4059; pfam13268 416870004449 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 416870004450 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 416870004451 Walker A/P-loop; other site 416870004452 ATP binding site [chemical binding]; other site 416870004453 Q-loop/lid; other site 416870004454 ABC transporter signature motif; other site 416870004455 Walker B; other site 416870004456 D-loop; other site 416870004457 H-loop/switch region; other site 416870004458 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 416870004459 dimer interface [polypeptide binding]; other site 416870004460 conserved gate region; other site 416870004461 putative PBP binding loops; other site 416870004462 ABC-ATPase subunit interface; other site 416870004463 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 416870004464 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 416870004465 substrate binding pocket [chemical binding]; other site 416870004466 membrane-bound complex binding site; other site 416870004467 hinge residues; other site 416870004468 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 416870004469 NlpC/P60 family; Region: NLPC_P60; pfam00877 416870004470 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 416870004471 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 416870004472 Potassium binding sites [ion binding]; other site 416870004473 Cesium cation binding sites [ion binding]; other site 416870004474 hypothetical protein; Provisional; Region: PRK00967 416870004475 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 416870004476 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 416870004477 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 416870004478 Putative zinc ribbon domain; Region: Zn_ribbon_2; pfam12674 416870004479 phosphopentomutase; Provisional; Region: PRK05362 416870004480 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 416870004481 Transcriptional regulator [Transcription]; Region: LytR; COG1316 416870004482 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 416870004483 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 416870004484 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 416870004485 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 416870004486 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 416870004487 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 416870004488 active site 416870004489 nucleotide binding site [chemical binding]; other site 416870004490 HIGH motif; other site 416870004491 KMSKS motif; other site 416870004492 Glycosyl hydrolase family 43; Region: GH43_ABN_2; cd08999 416870004493 putative substrate binding site [chemical binding]; other site 416870004494 active site 416870004495 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 416870004496 active site 416870004497 catalytic triad [active] 416870004498 oxyanion hole [active] 416870004499 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 416870004500 Integrase core domain; Region: rve; pfam00665 416870004501 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 416870004502 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 416870004503 Walker A motif; other site 416870004504 ATP binding site [chemical binding]; other site 416870004505 Walker B motif; other site 416870004506 arginine finger; other site 416870004507 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 416870004508 trimer interface [polypeptide binding]; other site 416870004509 CoA binding site [chemical binding]; other site 416870004510 active site 416870004511 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 416870004512 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 416870004513 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 416870004514 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 416870004515 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 416870004516 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 416870004517 active site 416870004518 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 416870004519 active site 416870004520 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 416870004521 active site 416870004522 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 416870004523 active site 416870004524 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 416870004525 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 416870004526 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 416870004527 Walker A/P-loop; other site 416870004528 ATP binding site [chemical binding]; other site 416870004529 Q-loop/lid; other site 416870004530 ABC transporter signature motif; other site 416870004531 Walker B; other site 416870004532 D-loop; other site 416870004533 H-loop/switch region; other site 416870004534 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 416870004535 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 416870004536 MarR family; Region: MarR_2; pfam12802 416870004537 MarR family; Region: MarR_2; cl17246 416870004538 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 416870004539 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 416870004540 S-adenosylmethionine binding site [chemical binding]; other site 416870004541 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 416870004542 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 416870004543 Mg2+ binding site [ion binding]; other site 416870004544 G-X-G motif; other site 416870004545 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 416870004546 anchoring element; other site 416870004547 dimer interface [polypeptide binding]; other site 416870004548 ATP binding site [chemical binding]; other site 416870004549 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 416870004550 active site 416870004551 putative metal-binding site [ion binding]; other site 416870004552 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 416870004553 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 416870004554 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 416870004555 motif II; other site 416870004556 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 416870004557 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 416870004558 putative metal binding site [ion binding]; other site 416870004559 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 416870004560 active site 416870004561 metal binding site [ion binding]; metal-binding site 416870004562 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 416870004563 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 416870004564 Walker A/P-loop; other site 416870004565 ATP binding site [chemical binding]; other site 416870004566 Q-loop/lid; other site 416870004567 ABC transporter signature motif; other site 416870004568 Walker B; other site 416870004569 D-loop; other site 416870004570 H-loop/switch region; other site 416870004571 EamA-like transporter family; Region: EamA; pfam00892 416870004572 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 416870004573 2-hydroxycarboxylate transporter family; Region: 2HCT; cl01386 416870004574 malate dehydrogenase; Provisional; Region: PRK13529 416870004575 Malic enzyme, N-terminal domain; Region: malic; pfam00390 416870004576 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 416870004577 NAD(P) binding site [chemical binding]; other site 416870004578 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 416870004579 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 416870004580 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 416870004581 ABC transporter; Region: ABC_tran_2; pfam12848 416870004582 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 416870004583 acetoin reductase; Validated; Region: PRK08643 416870004584 meso-2,3-butanediol dehydrogenase-like, classical (c) SDRs; Region: meso-BDH-like_SDR_c; cd05366 416870004585 NAD binding site [chemical binding]; other site 416870004586 homotetramer interface [polypeptide binding]; other site 416870004587 homodimer interface [polypeptide binding]; other site 416870004588 active site 416870004589 substrate binding site [chemical binding]; other site 416870004590 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 416870004591 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 416870004592 putative NAD(P) binding site [chemical binding]; other site 416870004593 catalytic Zn binding site [ion binding]; other site 416870004594 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 416870004595 Uncharacterized conserved protein [Function unknown]; Region: COG0398 416870004596 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 416870004597 Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]; Region: VacB; COG1098 416870004598 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 416870004599 RNA binding site [nucleotide binding]; other site 416870004600 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 416870004601 active site 416870004602 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 416870004603 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 416870004604 motif II; other site 416870004605 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 416870004606 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 416870004607 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 416870004608 active site 416870004609 phosphorylation site [posttranslational modification] 416870004610 intermolecular recognition site; other site 416870004611 dimerization interface [polypeptide binding]; other site 416870004612 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 416870004613 DNA binding residues [nucleotide binding] 416870004614 dimerization interface [polypeptide binding]; other site 416870004615 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 416870004616 Histidine kinase; Region: HisKA_3; pfam07730 416870004617 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 416870004618 ATP binding site [chemical binding]; other site 416870004619 Mg2+ binding site [ion binding]; other site 416870004620 G-X-G motif; other site 416870004621 Predicted membrane protein [Function unknown]; Region: COG4758 416870004622 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 416870004623 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 416870004624 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 416870004625 putative metal binding site [ion binding]; other site 416870004626 CHAP domain; Region: CHAP; pfam05257 416870004627 Surface antigen [General function prediction only]; Region: COG3942 416870004628 putative transposase OrfB; Reviewed; Region: PHA02517 416870004629 HTH-like domain; Region: HTH_21; pfam13276 416870004630 Integrase core domain; Region: rve; pfam00665 416870004631 Integrase core domain; Region: rve_3; pfam13683 416870004632 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416870004633 Transposase; Region: HTH_Tnp_1; pfam01527 416870004634 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 416870004635 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 416870004636 active site 416870004637 DNA binding site [nucleotide binding] 416870004638 Int/Topo IB signature motif; other site 416870004639 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 416870004640 Predicted membrane protein [Function unknown]; Region: COG1511 416870004641 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 416870004642 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 416870004643 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 416870004644 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 416870004645 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 416870004646 IHF - DNA interface [nucleotide binding]; other site 416870004647 IHF dimer interface [polypeptide binding]; other site 416870004648 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 416870004649 Ligand Binding Site [chemical binding]; other site 416870004650 nicotinamide mononucleotide transporter PnuC; Region: NMN_trans_PnuC; TIGR01528 416870004651 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 416870004652 N-glycosyltransferase; Provisional; Region: PRK11204 416870004653 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 416870004654 DXD motif; other site 416870004655 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416870004656 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 416870004657 Coenzyme A binding pocket [chemical binding]; other site 416870004658 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 416870004659 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 416870004660 SnoaL-like domain; Region: SnoaL_3; pfam13474 416870004661 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 416870004662 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 416870004663 synthetase active site [active] 416870004664 NTP binding site [chemical binding]; other site 416870004665 metal binding site [ion binding]; metal-binding site 416870004666 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416870004667 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416870004668 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 416870004669 dimerization interface [polypeptide binding]; other site 416870004670 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 416870004671 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 416870004672 Walker A/P-loop; other site 416870004673 ATP binding site [chemical binding]; other site 416870004674 Q-loop/lid; other site 416870004675 ABC transporter signature motif; other site 416870004676 Walker B; other site 416870004677 D-loop; other site 416870004678 H-loop/switch region; other site 416870004679 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 416870004680 phospho-N-acetylmuramoyl-pentapeptide-transferase; Region: mraY; TIGR00445 416870004681 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 416870004682 Mg++ binding site [ion binding]; other site 416870004683 putative catalytic motif [active] 416870004684 putative substrate binding site [chemical binding]; other site 416870004685 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 416870004686 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 416870004687 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 416870004688 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 416870004689 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 416870004690 Protein required for the initiation of cell division [Cell division and chromosome partitioning]; Region: FtsL; COG4839 416870004691 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 416870004692 MraW methylase family; Region: Methyltransf_5; pfam01795 416870004693 Protein of unknown function (DUF805); Region: DUF805; pfam05656 416870004694 Protein of unknown function (DUF805); Region: DUF805; cl01224 416870004695 Predicted membrane protein [Function unknown]; Region: COG3152 416870004696 Predicted integral membrane protein [Function unknown]; Region: COG3548 416870004697 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 416870004698 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 416870004699 Walker A/P-loop; other site 416870004700 ATP binding site [chemical binding]; other site 416870004701 Q-loop/lid; other site 416870004702 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 416870004703 ABC transporter signature motif; other site 416870004704 Walker B; other site 416870004705 D-loop; other site 416870004706 H-loop/switch region; other site 416870004707 Arginine repressor [Transcription]; Region: ArgR; COG1438 416870004708 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 416870004709 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 416870004710 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 416870004711 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 416870004712 RNA binding surface [nucleotide binding]; other site 416870004713 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 416870004714 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 416870004715 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416870004716 Coenzyme A binding pocket [chemical binding]; other site 416870004717 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 416870004718 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 416870004719 substrate binding pocket [chemical binding]; other site 416870004720 chain length determination region; other site 416870004721 substrate-Mg2+ binding site; other site 416870004722 catalytic residues [active] 416870004723 aspartate-rich region 1; other site 416870004724 active site lid residues [active] 416870004725 aspartate-rich region 2; other site 416870004726 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 416870004727 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 416870004728 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 416870004729 generic binding surface II; other site 416870004730 generic binding surface I; other site 416870004731 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14179 416870004732 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 416870004733 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 416870004734 homodimer interface [polypeptide binding]; other site 416870004735 NADP binding site [chemical binding]; other site 416870004736 substrate binding site [chemical binding]; other site 416870004737 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 416870004738 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 416870004739 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 416870004740 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 416870004741 ABC-ATPase subunit interface; other site 416870004742 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 416870004743 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 416870004744 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416870004745 Walker A/P-loop; other site 416870004746 ATP binding site [chemical binding]; other site 416870004747 Q-loop/lid; other site 416870004748 ABC transporter signature motif; other site 416870004749 Walker B; other site 416870004750 D-loop; other site 416870004751 H-loop/switch region; other site 416870004752 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 416870004753 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 416870004754 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 416870004755 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 416870004756 ArsC family; Region: ArsC; pfam03960 416870004757 putative catalytic residues [active] 416870004758 thiol/disulfide switch; other site 416870004759 alanine racemase; Reviewed; Region: alr; PRK00053 416870004760 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 416870004761 active site 416870004762 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 416870004763 dimer interface [polypeptide binding]; other site 416870004764 substrate binding site [chemical binding]; other site 416870004765 catalytic residues [active] 416870004766 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 416870004767 dipeptidase PepV; Region: dipeptidase; TIGR01886 416870004768 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 416870004769 active site 416870004770 metal binding site [ion binding]; metal-binding site 416870004771 Domain of unknown function (DUF1792); Region: DUF1792; cl07392 416870004772 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 416870004773 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 416870004774 Ligand binding site; other site 416870004775 metal-binding site 416870004776 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 416870004777 trimer interface [polypeptide binding]; other site 416870004778 active site 416870004779 substrate binding site [chemical binding]; other site 416870004780 CoA binding site [chemical binding]; other site 416870004781 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 416870004782 active site 416870004783 putative transposase OrfB; Reviewed; Region: PHA02517 416870004784 HTH-like domain; Region: HTH_21; pfam13276 416870004785 Integrase core domain; Region: rve; pfam00665 416870004786 Integrase core domain; Region: rve_3; pfam13683 416870004787 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416870004788 Transposase; Region: HTH_Tnp_1; pfam01527 416870004789 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416870004790 Transposase; Region: HTH_Tnp_1; pfam01527 416870004791 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 416870004792 HTH-like domain; Region: HTH_21; pfam13276 416870004793 Integrase core domain; Region: rve; pfam00665 416870004794 Integrase core domain; Region: rve_3; pfam13683 416870004795 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 416870004796 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 416870004797 minor groove reading motif; other site 416870004798 helix-hairpin-helix signature motif; other site 416870004799 substrate binding pocket [chemical binding]; other site 416870004800 active site 416870004801 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 416870004802 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 416870004803 DNA binding and oxoG recognition site [nucleotide binding] 416870004804 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 416870004805 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 416870004806 GIY-YIG motif/motif A; other site 416870004807 active site 416870004808 catalytic site [active] 416870004809 putative DNA binding site [nucleotide binding]; other site 416870004810 metal binding site [ion binding]; metal-binding site 416870004811 UvrB/uvrC motif; Region: UVR; pfam02151 416870004812 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 416870004813 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 416870004814 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 416870004815 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 416870004816 Fibronectin-binding repeat; Region: SSURE; pfam11966 416870004817 Fibronectin-binding repeat; Region: SSURE; pfam11966 416870004818 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 416870004819 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 416870004820 RNA binding site [nucleotide binding]; other site 416870004821 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 416870004822 RNA binding site [nucleotide binding]; other site 416870004823 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 416870004824 RNA binding site [nucleotide binding]; other site 416870004825 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 416870004826 RNA binding site [nucleotide binding]; other site 416870004827 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 416870004828 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 416870004829 Galactose-1-phosphate uridylyltransferase [Energy production and conversion]; Region: GalT; COG1085 416870004830 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 416870004831 nucleotide binding site/active site [active] 416870004832 HIT family signature motif; other site 416870004833 catalytic residue [active] 416870004834 Predicted membrane protein [Function unknown]; Region: COG4485 416870004835 6-pyruvoyl-tetrahydropterin synthase related domain; membrane protein; Region: PTPS_related; pfam10131 416870004836 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 416870004837 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 416870004838 metal-binding site [ion binding] 416870004839 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 416870004840 Soluble P-type ATPase [General function prediction only]; Region: COG4087 416870004841 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 416870004842 metal-binding site [ion binding] 416870004843 Predicted transcriptional regulator [Transcription]; Region: COG3682 416870004844 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 416870004845 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 416870004846 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 416870004847 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 416870004848 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 416870004849 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 416870004850 putative L-serine binding site [chemical binding]; other site 416870004851 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 416870004852 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 416870004853 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 416870004854 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 416870004855 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 416870004856 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 416870004857 Lipase (class 2); Region: Lipase_2; pfam01674 416870004858 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 416870004859 beta-galactosidase; Region: BGL; TIGR03356 416870004860 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 416870004861 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 416870004862 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 416870004863 putative active site [active] 416870004864 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 416870004865 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 416870004866 HIGH motif; other site 416870004867 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 416870004868 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 416870004869 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 416870004870 active site 416870004871 KMSKS motif; other site 416870004872 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 416870004873 tRNA binding surface [nucleotide binding]; other site 416870004874 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 416870004875 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 416870004876 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 416870004877 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02269 416870004878 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 416870004879 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 416870004880 active site 416870004881 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 416870004882 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 416870004883 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 416870004884 P loop; other site 416870004885 GTP binding site [chemical binding]; other site 416870004886 Protein of unknown function (DUF3159); Region: DUF3159; pfam11361 416870004887 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 416870004888 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 416870004889 active site 416870004890 motif I; other site 416870004891 motif II; other site 416870004892 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 416870004893 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 416870004894 YibE/F-like protein; Region: YibE_F; cl02259 416870004895 Predicted multitransmembrane protein [Function unknown]; Region: COG5438 416870004896 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 416870004897 Sulfatase; Region: Sulfatase; cl17466 416870004898 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 416870004899 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 416870004900 Walker A/P-loop; other site 416870004901 ATP binding site [chemical binding]; other site 416870004902 Q-loop/lid; other site 416870004903 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 416870004904 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 416870004905 ABC transporter signature motif; other site 416870004906 Walker B; other site 416870004907 D-loop; other site 416870004908 H-loop/switch region; other site 416870004909 ribonuclease III; Reviewed; Region: rnc; PRK00102 416870004910 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 416870004911 dimerization interface [polypeptide binding]; other site 416870004912 active site 416870004913 metal binding site [ion binding]; metal-binding site 416870004914 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 416870004915 dsRNA binding site [nucleotide binding]; other site 416870004916 ornithine carbamoyltransferase; Validated; Region: PRK02102 416870004917 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 416870004918 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 416870004919 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 416870004920 feedback inhibition sensing region; other site 416870004921 homohexameric interface [polypeptide binding]; other site 416870004922 nucleotide binding site [chemical binding]; other site 416870004923 N-acetyl-L-glutamate binding site [chemical binding]; other site 416870004924 acetylornithine aminotransferase; Provisional; Region: argD; PRK02936 416870004925 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 416870004926 inhibitor-cofactor binding pocket; inhibition site 416870004927 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416870004928 catalytic residue [active] 416870004929 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 416870004930 heterotetramer interface [polypeptide binding]; other site 416870004931 active site pocket [active] 416870004932 cleavage site 416870004933 N-acetyl-gamma-glutamyl-phosphate reductase, common form; Region: argC; TIGR01850 416870004934 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 416870004935 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 416870004936 NADH(P)-binding; Region: NAD_binding_10; pfam13460 416870004937 NAD binding site [chemical binding]; other site 416870004938 substrate binding site [chemical binding]; other site 416870004939 putative active site [active] 416870004940 Predicted membrane protein [Function unknown]; Region: COG4708 416870004941 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK06550 416870004942 classical (c) SDRs; Region: SDR_c; cd05233 416870004943 NAD(P) binding site [chemical binding]; other site 416870004944 active site 416870004945 Protein of unknown function (DUF2829); Region: DUF2829; pfam11195 416870004946 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 416870004947 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 416870004948 active site 416870004949 HIGH motif; other site 416870004950 KMSKS motif; other site 416870004951 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 416870004952 tRNA binding surface [nucleotide binding]; other site 416870004953 anticodon binding site; other site 416870004954 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 416870004955 dimer interface [polypeptide binding]; other site 416870004956 putative tRNA-binding site [nucleotide binding]; other site 416870004957 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 416870004958 active site 416870004959 putative catalytic site [active] 416870004960 DNA binding site [nucleotide binding] 416870004961 putative phosphate binding site [ion binding]; other site 416870004962 metal binding site A [ion binding]; metal-binding site 416870004963 AP binding site [nucleotide binding]; other site 416870004964 metal binding site B [ion binding]; metal-binding site 416870004965 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 416870004966 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 416870004967 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 416870004968 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 416870004969 ArsC family; Region: ArsC; pfam03960 416870004970 putative ArsC-like catalytic residues; other site 416870004971 putative TRX-like catalytic residues [active] 416870004972 Uncharacterized protein YrkD from Bacillus subtilis and related domains; this domain superfamily was previously known as part of DUF156; Region: BsYrkD-like_DUF156; cd10155 416870004973 putative homodimer interface [polypeptide binding]; other site 416870004974 putative homotetramer interface [polypeptide binding]; other site 416870004975 putative metal binding site [ion binding]; other site 416870004976 putative homodimer-homodimer interface [polypeptide binding]; other site 416870004977 putative allosteric switch controlling residues; other site 416870004978 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 416870004979 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 416870004980 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 416870004981 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 416870004982 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 416870004983 active site residue [active] 416870004984 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 416870004985 active site residue [active] 416870004986 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 416870004987 active site residue [active] 416870004988 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3237 416870004989 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 416870004990 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 416870004991 dimer interface [polypeptide binding]; other site 416870004992 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416870004993 catalytic residue [active] 416870004994 cystathionine gamma-synthase/cystathionine beta-lyase; Validated; Region: PRK06176 416870004995 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 416870004996 homodimer interface [polypeptide binding]; other site 416870004997 substrate-cofactor binding pocket; other site 416870004998 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416870004999 catalytic residue [active] 416870005000 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; COG0825 416870005001 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 416870005002 DNA directed RNA polymerase, 7 kDa subunit; Region: DNA_RNApol_7kD; cl00874 416870005003 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 416870005004 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 416870005005 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 416870005006 ATP-grasp domain; Region: ATP-grasp_4; cl17255 416870005007 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 416870005008 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 416870005009 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 416870005010 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 416870005011 carboxyltransferase (CT) interaction site; other site 416870005012 biotinylation site [posttranslational modification]; other site 416870005013 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 416870005014 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 416870005015 dimer interface [polypeptide binding]; other site 416870005016 active site 416870005017 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 416870005018 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 416870005019 NAD(P) binding site [chemical binding]; other site 416870005020 homotetramer interface [polypeptide binding]; other site 416870005021 homodimer interface [polypeptide binding]; other site 416870005022 active site 416870005023 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 416870005024 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 416870005025 acyl carrier protein; Provisional; Region: acpP; PRK00982 416870005026 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 416870005027 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 416870005028 dimer interface [polypeptide binding]; other site 416870005029 active site 416870005030 CoA binding pocket [chemical binding]; other site 416870005031 MarR family; Region: MarR; pfam01047 416870005032 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 416870005033 mannose-6-phosphate isomerase, class I; Region: manA; TIGR00218 416870005034 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 416870005035 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 416870005036 translation initiation factor IF-2; Region: IF-2; TIGR00487 416870005037 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 416870005038 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 416870005039 G1 box; other site 416870005040 putative GEF interaction site [polypeptide binding]; other site 416870005041 GTP/Mg2+ binding site [chemical binding]; other site 416870005042 Switch I region; other site 416870005043 G2 box; other site 416870005044 G3 box; other site 416870005045 Switch II region; other site 416870005046 G4 box; other site 416870005047 G5 box; other site 416870005048 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 416870005049 Translation-initiation factor 2; Region: IF-2; pfam11987 416870005050 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 416870005051 hypothetical protein; Provisional; Region: PRK07283 416870005052 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 416870005053 putative RNA binding cleft [nucleotide binding]; other site 416870005054 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 416870005055 NusA N-terminal domain; Region: NusA_N; pfam08529 416870005056 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 416870005057 RNA binding site [nucleotide binding]; other site 416870005058 homodimer interface [polypeptide binding]; other site 416870005059 NusA-like KH domain; Region: KH_5; pfam13184 416870005060 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 416870005061 G-X-X-G motif; other site 416870005062 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG0779 416870005063 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 416870005064 putative oligomer interface [polypeptide binding]; other site 416870005065 putative RNA binding site [nucleotide binding]; other site 416870005066 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 416870005067 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 416870005068 CD20-like family; Region: CD20; pfam04103 416870005069 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 416870005070 active site 416870005071 catalytic site [active] 416870005072 Protein of unknown function (DUF3990); Region: DUF3990; pfam13151 416870005073 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 416870005074 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 416870005075 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 416870005076 non-specific DNA binding site [nucleotide binding]; other site 416870005077 salt bridge; other site 416870005078 sequence-specific DNA binding site [nucleotide binding]; other site 416870005079 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 416870005080 GTP-binding protein Der; Reviewed; Region: PRK00093 416870005081 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 416870005082 G1 box; other site 416870005083 GTP/Mg2+ binding site [chemical binding]; other site 416870005084 Switch I region; other site 416870005085 G2 box; other site 416870005086 Switch II region; other site 416870005087 G3 box; other site 416870005088 G4 box; other site 416870005089 G5 box; other site 416870005090 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 416870005091 G1 box; other site 416870005092 GTP/Mg2+ binding site [chemical binding]; other site 416870005093 Switch I region; other site 416870005094 G2 box; other site 416870005095 G3 box; other site 416870005096 Switch II region; other site 416870005097 G4 box; other site 416870005098 G5 box; other site 416870005099 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 416870005100 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 416870005101 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 416870005102 dimer interface [polypeptide binding]; other site 416870005103 FMN binding site [chemical binding]; other site 416870005104 NADPH bind site [chemical binding]; other site 416870005105 primosomal protein DnaI; Reviewed; Region: PRK08939 416870005106 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 416870005107 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 416870005108 Walker A motif; other site 416870005109 ATP binding site [chemical binding]; other site 416870005110 Walker B motif; other site 416870005111 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 416870005112 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 416870005113 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 416870005114 Transcription factor S-II (TFIIS); Region: TFIIS_C; cl02609 416870005115 ATP cone domain; Region: ATP-cone; pfam03477 416870005116 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 416870005117 S-adenosylmethionine binding site [chemical binding]; other site 416870005118 Phosphotransferase enzyme family; Region: APH; pfam01636 416870005119 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 416870005120 active site 416870005121 ATP binding site [chemical binding]; other site 416870005122 substrate binding site [chemical binding]; other site 416870005123 Uncharacterized protein conserved in bacteria [Function unknown]; Region: Veg; COG4466 416870005124 replicative DNA helicase; Provisional; Region: PRK05748 416870005125 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 416870005126 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 416870005127 Walker A motif; other site 416870005128 ATP binding site [chemical binding]; other site 416870005129 Walker B motif; other site 416870005130 DNA binding loops [nucleotide binding] 416870005131 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 416870005132 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 416870005133 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 416870005134 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 416870005135 DHH family; Region: DHH; pfam01368 416870005136 DHHA1 domain; Region: DHHA1; pfam02272 416870005137 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 416870005138 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 416870005139 motif II; other site 416870005140 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 416870005141 MarR family; Region: MarR_2; pfam12802 416870005142 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 416870005143 active site 416870005144 nucleophile elbow; other site 416870005145 aspartate kinase; Reviewed; Region: PRK09034 416870005146 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 416870005147 nucleotide binding site [chemical binding]; other site 416870005148 substrate binding site [chemical binding]; other site 416870005149 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 416870005150 allosteric regulatory residue; other site 416870005151 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 416870005152 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 416870005153 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 416870005154 active site 416870005155 motif I; other site 416870005156 motif II; other site 416870005157 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 416870005158 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4696 416870005159 metal binding site [ion binding]; metal-binding site 416870005160 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 416870005161 active site 416870005162 homotetramer interface [polypeptide binding]; other site 416870005163 homodimer interface [polypeptide binding]; other site 416870005164 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 416870005165 DHH family; Region: DHH; pfam01368 416870005166 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 416870005167 DRTGG domain; Region: DRTGG; pfam07085 416870005168 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 416870005169 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 416870005170 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 416870005171 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 416870005172 chorismate binding enzyme; Region: Chorismate_bind; cl10555 416870005173 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase [Coenzyme metabolism]; Region: MenD; COG1165 416870005174 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 416870005175 dimer interface [polypeptide binding]; other site 416870005176 tetramer interface [polypeptide binding]; other site 416870005177 PYR/PP interface [polypeptide binding]; other site 416870005178 TPP binding site [chemical binding]; other site 416870005179 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 416870005180 TPP-binding site; other site 416870005181 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 416870005182 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 416870005183 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 416870005184 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 416870005185 substrate binding site [chemical binding]; other site 416870005186 oxyanion hole (OAH) forming residues; other site 416870005187 trimer interface [polypeptide binding]; other site 416870005188 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 416870005189 O-succinylbenzoate-CoA ligase; Region: menE; TIGR01923 416870005190 acyl-activating enzyme (AAE) consensus motif; other site 416870005191 putative AMP binding site [chemical binding]; other site 416870005192 putative active site [active] 416870005193 putative CoA binding site [chemical binding]; other site 416870005194 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 416870005195 o-succinylbenzoate synthase; Region: menC_lowGC/arch; TIGR01928 416870005196 active site 416870005197 octamer interface [polypeptide binding]; other site 416870005198 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 416870005199 CoenzymeA binding site [chemical binding]; other site 416870005200 subunit interaction site [polypeptide binding]; other site 416870005201 PHB binding site; other site 416870005202 Transcriptional regulators [Transcription]; Region: PurR; COG1609 416870005203 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 416870005204 DNA binding site [nucleotide binding] 416870005205 domain linker motif; other site 416870005206 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 416870005207 dimerization interface [polypeptide binding]; other site 416870005208 ligand binding site [chemical binding]; other site 416870005209 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 416870005210 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 416870005211 putative active site [active] 416870005212 putative catalytic site [active] 416870005213 Protein of unknown function, DUF624; Region: DUF624; pfam04854 416870005214 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 416870005215 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 416870005216 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 416870005217 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 416870005218 dimer interface [polypeptide binding]; other site 416870005219 conserved gate region; other site 416870005220 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 416870005221 ABC-ATPase subunit interface; other site 416870005222 putative transposase OrfB; Reviewed; Region: PHA02517 416870005223 HTH-like domain; Region: HTH_21; pfam13276 416870005224 Integrase core domain; Region: rve; pfam00665 416870005225 Integrase core domain; Region: rve_3; pfam13683 416870005226 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416870005227 Transposase; Region: HTH_Tnp_1; pfam01527 416870005228 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 416870005229 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 416870005230 nucleoside/Zn binding site; other site 416870005231 dimer interface [polypeptide binding]; other site 416870005232 catalytic motif [active] 416870005233 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 416870005234 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 416870005235 active site 416870005236 metal binding site [ion binding]; metal-binding site 416870005237 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 416870005238 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 416870005239 DNA-binding site [nucleotide binding]; DNA binding site 416870005240 RNA-binding motif; other site 416870005241 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 416870005242 DNA-binding site [nucleotide binding]; DNA binding site 416870005243 RNA-binding motif; other site 416870005244 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 416870005245 substrate binding site [chemical binding]; other site 416870005246 THF binding site; other site 416870005247 zinc-binding site [ion binding]; other site 416870005248 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 416870005249 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 416870005250 putative NAD(P) binding site [chemical binding]; other site 416870005251 dimer interface [polypeptide binding]; other site 416870005252 Predicted membrane protein [Function unknown]; Region: COG3619 416870005253 Nucleic-acid-binding protein containing Zn-ribbon domain (DUF2082); Region: DUF2082; pfam09855 416870005254 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 416870005255 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 416870005256 Walker A/P-loop; other site 416870005257 ATP binding site [chemical binding]; other site 416870005258 Q-loop/lid; other site 416870005259 ABC transporter signature motif; other site 416870005260 Walker B; other site 416870005261 D-loop; other site 416870005262 H-loop/switch region; other site 416870005263 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 416870005264 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 416870005265 FtsX-like permease family; Region: FtsX; pfam02687 416870005266 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 416870005267 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 416870005268 Protein of unknown function (DUF1211); Region: DUF1211; cl01421 416870005269 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 416870005270 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 416870005271 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416870005272 Walker A/P-loop; other site 416870005273 ATP binding site [chemical binding]; other site 416870005274 Q-loop/lid; other site 416870005275 ABC transporter signature motif; other site 416870005276 Walker B; other site 416870005277 D-loop; other site 416870005278 H-loop/switch region; other site 416870005279 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 416870005280 catalytic triad [active] 416870005281 Flavodoxin domain; Region: Flavodoxin_5; cl17428 416870005282 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 416870005283 putative DNA binding site [nucleotide binding]; other site 416870005284 putative Zn2+ binding site [ion binding]; other site 416870005285 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 416870005286 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 416870005287 ATP-binding cassette domain of CydCD, subfamily C; Region: ABCC_cytochrome_bd; cd03247 416870005288 Walker A/P-loop; other site 416870005289 ATP binding site [chemical binding]; other site 416870005290 Q-loop/lid; other site 416870005291 ABC transporter signature motif; other site 416870005292 Walker B; other site 416870005293 D-loop; other site 416870005294 H-loop/switch region; other site 416870005295 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 416870005296 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 416870005297 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416870005298 Walker A/P-loop; other site 416870005299 ATP binding site [chemical binding]; other site 416870005300 Q-loop/lid; other site 416870005301 ABC transporter signature motif; other site 416870005302 Walker B; other site 416870005303 D-loop; other site 416870005304 H-loop/switch region; other site 416870005305 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 416870005306 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 416870005307 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 416870005308 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 416870005309 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 416870005310 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 416870005311 putative substrate translocation pore; other site 416870005312 POT family; Region: PTR2; pfam00854 416870005313 COMC family; Region: ComC; pfam03047 416870005314 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 416870005315 non-specific DNA binding site [nucleotide binding]; other site 416870005316 salt bridge; other site 416870005317 sequence-specific DNA binding site [nucleotide binding]; other site 416870005318 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 416870005319 active site 416870005320 homodimer interface [polypeptide binding]; other site 416870005321 catalytic site [active] 416870005322 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 416870005323 homodimer interface [polypeptide binding]; other site 416870005324 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 416870005325 active site pocket [active] 416870005326 glycogen synthase; Provisional; Region: glgA; PRK00654 416870005327 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 416870005328 ADP-binding pocket [chemical binding]; other site 416870005329 homodimer interface [polypeptide binding]; other site 416870005330 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 416870005331 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 416870005332 ligand binding site; other site 416870005333 oligomer interface; other site 416870005334 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 416870005335 dimer interface [polypeptide binding]; other site 416870005336 N-terminal domain interface [polypeptide binding]; other site 416870005337 sulfate 1 binding site; other site 416870005338 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 416870005339 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 416870005340 ligand binding site; other site 416870005341 oligomer interface; other site 416870005342 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 416870005343 dimer interface [polypeptide binding]; other site 416870005344 N-terminal domain interface [polypeptide binding]; other site 416870005345 sulfate 1 binding site; other site 416870005346 putative RNA binding site [nucleotide binding]; other site 416870005347 Transcription termination factor [Transcription]; Region: NusB; COG0781 416870005348 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 416870005349 elongation factor P; Validated; Region: PRK00529 416870005350 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 416870005351 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 416870005352 RNA binding site [nucleotide binding]; other site 416870005353 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 416870005354 RNA binding site [nucleotide binding]; other site 416870005355 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 416870005356 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 416870005357 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 416870005358 active site 416870005359 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 416870005360 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 416870005361 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 416870005362 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 416870005363 putative active site [active] 416870005364 putative metal binding site [ion binding]; other site 416870005365 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 416870005366 topology modulation protein; Reviewed; Region: PRK08118 416870005367 AAA domain; Region: AAA_17; pfam13207 416870005368 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 416870005369 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 416870005370 active site 416870005371 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 416870005372 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 416870005373 Int/Topo IB signature motif; other site 416870005374 Antirestriction protein (ArdA); Region: ArdA; pfam07275 416870005375 CHAP domain; Region: CHAP; cl17642 416870005376 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 416870005377 HTH-like domain; Region: HTH_21; pfam13276 416870005378 Integrase core domain; Region: rve; pfam00665 416870005379 Integrase core domain; Region: rve_3; pfam13683 416870005380 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 416870005381 catalytic core [active] 416870005382 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 416870005383 PhoU domain; Region: PhoU; pfam01895 416870005384 PhoU domain; Region: PhoU; pfam01895 416870005385 phosphate transporter ATP-binding protein; Provisional; Region: PRK14239 416870005386 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 416870005387 Walker A/P-loop; other site 416870005388 ATP binding site [chemical binding]; other site 416870005389 Q-loop/lid; other site 416870005390 ABC transporter signature motif; other site 416870005391 Walker B; other site 416870005392 D-loop; other site 416870005393 H-loop/switch region; other site 416870005394 phosphate transporter ATP-binding protein; Provisional; Region: PRK14237 416870005395 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 416870005396 Walker A/P-loop; other site 416870005397 ATP binding site [chemical binding]; other site 416870005398 Q-loop/lid; other site 416870005399 ABC transporter signature motif; other site 416870005400 Walker B; other site 416870005401 D-loop; other site 416870005402 H-loop/switch region; other site 416870005403 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 416870005404 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 416870005405 dimer interface [polypeptide binding]; other site 416870005406 conserved gate region; other site 416870005407 putative PBP binding loops; other site 416870005408 ABC-ATPase subunit interface; other site 416870005409 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 416870005410 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 416870005411 dimer interface [polypeptide binding]; other site 416870005412 conserved gate region; other site 416870005413 putative PBP binding loops; other site 416870005414 ABC-ATPase subunit interface; other site 416870005415 PBP superfamily domain; Region: PBP_like_2; cl17296 416870005416 PBP superfamily domain; Region: PBP_like_2; cl17296 416870005417 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 416870005418 SmpB-tmRNA interface; other site 416870005419 Predicted transcriptional regulators [Transcription]; Region: COG1733 416870005420 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 416870005421 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 416870005422 dimer interface [polypeptide binding]; other site 416870005423 FMN binding site [chemical binding]; other site 416870005424 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 416870005425 active site 416870005426 catalytic triad [active] 416870005427 oxyanion hole [active] 416870005428 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 416870005429 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 416870005430 motif 1; other site 416870005431 active site 416870005432 motif 2; other site 416870005433 motif 3; other site 416870005434 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 416870005435 DHHA1 domain; Region: DHHA1; pfam02272 416870005436 foldase protein PrsA; Reviewed; Region: PRK12450 416870005437 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 416870005438 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 416870005439 S-adenosylmethionine binding site [chemical binding]; other site 416870005440 Oligoendopeptidase F [Amino acid transport and metabolism]; Region: COG1164 416870005441 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 416870005442 active site 416870005443 Zn binding site [ion binding]; other site 416870005444 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 416870005445 putative active site [active] 416870005446 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 416870005447 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 416870005448 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 416870005449 Sulfate transporter family; Region: Sulfate_transp; pfam00916 416870005450 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 416870005451 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 416870005452 active site 416870005453 motif I; other site 416870005454 motif II; other site 416870005455 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 416870005456 CoB--CoM heterodisulfide reductase, subunit B; Region: CoB_CoM_SS_B; TIGR03288 416870005457 Cysteine-rich domain; Region: CCG; pfam02754 416870005458 Cysteine-rich domain; Region: CCG; pfam02754 416870005459 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 416870005460 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 416870005461 Uncharacterized conserved protein [Function unknown]; Region: COG1556 416870005462 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 416870005463 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 416870005464 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 416870005465 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 416870005466 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 416870005467 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 416870005468 Zn2+ binding site [ion binding]; other site 416870005469 Mg2+ binding site [ion binding]; other site 416870005470 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 416870005471 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 416870005472 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 416870005473 AAA domain; Region: AAA_30; pfam13604 416870005474 Family description; Region: UvrD_C_2; pfam13538 416870005475 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 416870005476 catalytic core [active] 416870005477 prephenate dehydratase; Provisional; Region: PRK11898 416870005478 Prephenate dehydratase; Region: PDT; pfam00800 416870005479 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 416870005480 putative L-Phe binding site [chemical binding]; other site 416870005481 shikimate kinase; Reviewed; Region: aroK; PRK00131 416870005482 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 416870005483 ADP binding site [chemical binding]; other site 416870005484 magnesium binding site [ion binding]; other site 416870005485 putative shikimate binding site; other site 416870005486 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 416870005487 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 416870005488 hinge; other site 416870005489 active site 416870005490 prephenate dehydrogenase; Validated; Region: PRK06545 416870005491 prephenate dehydrogenase; Validated; Region: PRK08507 416870005492 C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH); Region: ACT_PDH-BS; cd04909 416870005493 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 416870005494 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 416870005495 ATP binding site [chemical binding]; other site 416870005496 Mg2+ binding site [ion binding]; other site 416870005497 G-X-G motif; other site 416870005498 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 416870005499 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 416870005500 active site 416870005501 phosphorylation site [posttranslational modification] 416870005502 intermolecular recognition site; other site 416870005503 dimerization interface [polypeptide binding]; other site 416870005504 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 416870005505 DNA binding site [nucleotide binding] 416870005506 Glycopeptide antibiotics resistance protein [Defense mechanisms]; Region: VanZ; COG4767 416870005507 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 416870005508 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 416870005509 Walker A/P-loop; other site 416870005510 ATP binding site [chemical binding]; other site 416870005511 Q-loop/lid; other site 416870005512 ABC transporter signature motif; other site 416870005513 Walker B; other site 416870005514 D-loop; other site 416870005515 H-loop/switch region; other site 416870005516 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5294 416870005517 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 416870005518 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 416870005519 Tetramer interface [polypeptide binding]; other site 416870005520 active site 416870005521 FMN-binding site [chemical binding]; other site 416870005522 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4493 416870005523 Protein of unknown function (DUF1054); Region: DUF1054; pfam06335 416870005524 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3238 416870005525 Protein of unknown function, DUF606; Region: DUF606; pfam04657 416870005526 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 416870005527 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 416870005528 active site 416870005529 dimer interface [polypeptide binding]; other site 416870005530 metal binding site [ion binding]; metal-binding site 416870005531 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 416870005532 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 416870005533 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 416870005534 shikimate binding site; other site 416870005535 NAD(P) binding site [chemical binding]; other site 416870005536 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 416870005537 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 416870005538 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 416870005539 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 416870005540 substrate binding pocket [chemical binding]; other site 416870005541 membrane-bound complex binding site; other site 416870005542 hinge residues; other site 416870005543 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 416870005544 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 416870005545 substrate binding pocket [chemical binding]; other site 416870005546 membrane-bound complex binding site; other site 416870005547 hinge residues; other site 416870005548 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 416870005549 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 416870005550 dimer interface [polypeptide binding]; other site 416870005551 conserved gate region; other site 416870005552 putative PBP binding loops; other site 416870005553 ABC-ATPase subunit interface; other site 416870005554 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 416870005555 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 416870005556 Walker A/P-loop; other site 416870005557 ATP binding site [chemical binding]; other site 416870005558 Q-loop/lid; other site 416870005559 ABC transporter signature motif; other site 416870005560 Walker B; other site 416870005561 D-loop; other site 416870005562 H-loop/switch region; other site 416870005563 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 416870005564 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 416870005565 gamma subunit interface [polypeptide binding]; other site 416870005566 epsilon subunit interface [polypeptide binding]; other site 416870005567 LBP interface [polypeptide binding]; other site 416870005568 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 416870005569 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 416870005570 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 416870005571 alpha subunit interaction interface [polypeptide binding]; other site 416870005572 Walker A motif; other site 416870005573 ATP binding site [chemical binding]; other site 416870005574 Walker B motif; other site 416870005575 inhibitor binding site; inhibition site 416870005576 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 416870005577 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 416870005578 core domain interface [polypeptide binding]; other site 416870005579 delta subunit interface [polypeptide binding]; other site 416870005580 epsilon subunit interface [polypeptide binding]; other site 416870005581 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 416870005582 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 416870005583 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 416870005584 beta subunit interaction interface [polypeptide binding]; other site 416870005585 Walker A motif; other site 416870005586 ATP binding site [chemical binding]; other site 416870005587 Walker B motif; other site 416870005588 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 416870005589 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 416870005590 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 416870005591 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 416870005592 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 416870005593 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 416870005594 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 416870005595 F0F1 ATP synthase subunit C; Provisional; Region: PRK13466 416870005596 Predicted esterase [General function prediction only]; Region: COG0627 416870005597 S-formylglutathione hydrolase; Region: PLN02442 416870005598 SLBB domain; Region: SLBB; pfam10531 416870005599 comEA protein; Region: comE; TIGR01259 416870005600 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 416870005601 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 416870005602 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 416870005603 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 416870005604 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416870005605 Walker A/P-loop; other site 416870005606 ATP binding site [chemical binding]; other site 416870005607 Q-loop/lid; other site 416870005608 ABC transporter signature motif; other site 416870005609 Walker B; other site 416870005610 D-loop; other site 416870005611 H-loop/switch region; other site 416870005612 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 416870005613 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 416870005614 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 416870005615 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 416870005616 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 416870005617 transmembrane helices; other site 416870005618 Putative transcription activator [Transcription]; Region: TenA; COG0819 416870005619 Zinc finger domain containing protein (CHY type) [Function unknown]; Region: COG4357 416870005620 CHY zinc finger; Region: zf-CHY; pfam05495 416870005621 Biotin operon repressor [Transcription]; Region: BirA; COG1654 416870005622 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 416870005623 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 416870005624 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 416870005625 BioY family; Region: BioY; pfam02632 416870005626 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 416870005627 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 416870005628 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 416870005629 acyl-activating enzyme (AAE) consensus motif; other site 416870005630 AMP binding site [chemical binding]; other site 416870005631 active site 416870005632 CoA binding site [chemical binding]; other site 416870005633 WXG100 protein secretion system (Wss), protein YukD; Region: YukD; pfam08817 416870005634 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4842 416870005635 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 416870005636 FeS assembly protein SufB; Region: sufB; TIGR01980 416870005637 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 416870005638 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 416870005639 trimerization site [polypeptide binding]; other site 416870005640 active site 416870005641 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 416870005642 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 416870005643 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 416870005644 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 416870005645 catalytic residue [active] 416870005646 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 416870005647 FeS assembly protein SufD; Region: sufD; TIGR01981 416870005648 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 416870005649 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 416870005650 Walker A/P-loop; other site 416870005651 ATP binding site [chemical binding]; other site 416870005652 Q-loop/lid; other site 416870005653 ABC transporter signature motif; other site 416870005654 Walker B; other site 416870005655 D-loop; other site 416870005656 H-loop/switch region; other site 416870005657 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416870005658 Helix-turn-helix domain; Region: HTH_28; pfam13518 416870005659 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416870005660 Helix-turn-helix domain; Region: HTH_28; pfam13518 416870005661 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 416870005662 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 416870005663 Mg++ binding site [ion binding]; other site 416870005664 putative catalytic motif [active] 416870005665 substrate binding site [chemical binding]; other site 416870005666 Negative regulator of genetic competence, sporulation and motility [Posttranslational modification, protein turnover, chaperones / Signal transduction mechanisms / Cell motility and secretion]; Region: MecA; COG4862 416870005667 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 416870005668 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 416870005669 Walker A/P-loop; other site 416870005670 ATP binding site [chemical binding]; other site 416870005671 Q-loop/lid; other site 416870005672 ABC transporter signature motif; other site 416870005673 Walker B; other site 416870005674 D-loop; other site 416870005675 H-loop/switch region; other site 416870005676 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 416870005677 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 416870005678 dimer interface [polypeptide binding]; other site 416870005679 conserved gate region; other site 416870005680 putative PBP binding loops; other site 416870005681 ABC-ATPase subunit interface; other site 416870005682 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 416870005683 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 416870005684 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 416870005685 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 416870005686 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 416870005687 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 416870005688 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 416870005689 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 416870005690 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 416870005691 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 416870005692 G-loop; other site 416870005693 DNA binding site [nucleotide binding] 416870005694 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 416870005695 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 416870005696 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 416870005697 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 416870005698 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 416870005699 RPB1 interaction site [polypeptide binding]; other site 416870005700 RPB10 interaction site [polypeptide binding]; other site 416870005701 RPB11 interaction site [polypeptide binding]; other site 416870005702 RPB3 interaction site [polypeptide binding]; other site 416870005703 RPB12 interaction site [polypeptide binding]; other site 416870005704 CodY GAF-like domain; Region: CodY; pfam06018 416870005705 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 416870005706 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 416870005707 non-specific DNA binding site [nucleotide binding]; other site 416870005708 salt bridge; other site 416870005709 sequence-specific DNA binding site [nucleotide binding]; other site 416870005710 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 416870005711 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 416870005712 active site 416870005713 Zn binding site [ion binding]; other site 416870005714 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 416870005715 active site 416870005716 DNA binding site [nucleotide binding] 416870005717 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 416870005718 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 416870005719 UDP-N-acetylmuramoylalanyl-D-glutamate--L-lysine ligase; Provisional; Region: PRK14022 416870005720 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 416870005721 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 416870005722 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 416870005723 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 416870005724 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 416870005725 NAD binding site [chemical binding]; other site 416870005726 substrate binding site [chemical binding]; other site 416870005727 catalytic Zn binding site [ion binding]; other site 416870005728 tetramer interface [polypeptide binding]; other site 416870005729 structural Zn binding site [ion binding]; other site 416870005730 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 416870005731 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 416870005732 ATP binding site [chemical binding]; other site 416870005733 putative Mg++ binding site [ion binding]; other site 416870005734 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 416870005735 nucleotide binding region [chemical binding]; other site 416870005736 ATP-binding site [chemical binding]; other site 416870005737 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 416870005738 HRDC domain; Region: HRDC; pfam00570 416870005739 inner membrane transporter YjeM; Provisional; Region: PRK15238 416870005740 peptidase T; Region: peptidase-T; TIGR01882 416870005741 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 416870005742 metal binding site [ion binding]; metal-binding site 416870005743 dimer interface [polypeptide binding]; other site 416870005744 Domain of unknown function (DUF1803); Region: DUF1803; pfam08820 416870005745 Domain of unknown function (DUF1803); Region: DUF1803; pfam08820 416870005746 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 416870005747 DHH family; Region: DHH; pfam01368 416870005748 DHHA2 domain; Region: DHHA2; pfam02833 416870005749 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 416870005750 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 416870005751 FeS/SAM binding site; other site 416870005752 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 416870005753 Domain of unknown function DUF21; Region: DUF21; pfam01595 416870005754 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 416870005755 Transporter associated domain; Region: CorC_HlyC; smart01091 416870005756 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 416870005757 Domain of unknown function DUF20; Region: UPF0118; pfam01594 416870005758 Transcriptional regulator; Region: Rrf2; pfam02082 416870005759 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870005760 NADH(P)-binding; Region: NAD_binding_10; pfam13460 416870005761 NAD(P) binding site [chemical binding]; other site 416870005762 active site 416870005763 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416870005764 Coenzyme A binding pocket [chemical binding]; other site 416870005765 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 416870005766 Bacteriophage peptidoglycan hydrolase; Region: Amidase_5; pfam05382 416870005767 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 416870005768 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 416870005769 putative uracil binding site [chemical binding]; other site 416870005770 putative active site [active] 416870005771 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 416870005772 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 416870005773 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 416870005774 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 416870005775 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 416870005776 GIY-YIG motif/motif A; other site 416870005777 putative active site [active] 416870005778 putative metal binding site [ion binding]; other site 416870005779 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 416870005780 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 416870005781 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 416870005782 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 416870005783 Thiamine pyrophosphokinase; Region: TPK; cd07995 416870005784 active site 416870005785 dimerization interface [polypeptide binding]; other site 416870005786 thiamine binding site [chemical binding]; other site 416870005787 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from bacteria and archaea; Region: NTP-PPase_u4; cd11541 416870005788 putative metal binding site [ion binding]; other site 416870005789 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 416870005790 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 416870005791 putative dimer interface [polypeptide binding]; other site 416870005792 putative anticodon binding site; other site 416870005793 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 416870005794 homodimer interface [polypeptide binding]; other site 416870005795 motif 1; other site 416870005796 motif 2; other site 416870005797 active site 416870005798 motif 3; other site 416870005799 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 416870005800 GIY-YIG motif/motif A; other site 416870005801 active site 416870005802 catalytic site [active] 416870005803 metal binding site [ion binding]; metal-binding site 416870005804 aspartate aminotransferase; Provisional; Region: PRK05764 416870005805 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 416870005806 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416870005807 homodimer interface [polypeptide binding]; other site 416870005808 catalytic residue [active] 416870005809 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 416870005810 DnaQ family exonuclease/DinG family helicase, putative; Region: dinG_rel; TIGR01407 416870005811 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 416870005812 active site 416870005813 catalytic site [active] 416870005814 substrate binding site [chemical binding]; other site 416870005815 DEAD/DEAH box helicase; Region: DEAD; pfam00270 416870005816 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 416870005817 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 416870005818 Ligand Binding Site [chemical binding]; other site 416870005819 The substrate binding component of an ABC-type lactococcal OppA-like transport system contains; Region: PBP2_Lactococcal_OppA_like; cd08510 416870005820 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 416870005821 peptide binding site [polypeptide binding]; other site 416870005822 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 416870005823 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 416870005824 dimer interface [polypeptide binding]; other site 416870005825 conserved gate region; other site 416870005826 putative PBP binding loops; other site 416870005827 ABC-ATPase subunit interface; other site 416870005828 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 416870005829 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 416870005830 dimer interface [polypeptide binding]; other site 416870005831 conserved gate region; other site 416870005832 putative PBP binding loops; other site 416870005833 ABC-ATPase subunit interface; other site 416870005834 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 416870005835 23S rRNA binding site [nucleotide binding]; other site 416870005836 L21 binding site [polypeptide binding]; other site 416870005837 L13 binding site [polypeptide binding]; other site 416870005838 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 416870005839 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 416870005840 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 416870005841 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 416870005842 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 416870005843 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 416870005844 motif II; other site 416870005845 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 416870005846 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 416870005847 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 416870005848 Protein of unknown function (DUF1033); Region: DUF1033; pfam06279 416870005849 Ribonuclease III family protein [Replication, recombination, and repair]; Region: COG1939 416870005850 active site 416870005851 metal binding site [ion binding]; metal-binding site 416870005852 dimerization interface [polypeptide binding]; other site 416870005853 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 416870005854 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 416870005855 active site 416870005856 HIGH motif; other site 416870005857 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 416870005858 KMSKS motif; other site 416870005859 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 416870005860 tRNA binding surface [nucleotide binding]; other site 416870005861 anticodon binding site; other site 416870005862 Protein of unknown function (DUF1211); Region: DUF1211; cl01421 416870005863 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 416870005864 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 416870005865 trimer interface [polypeptide binding]; other site 416870005866 active site 416870005867 substrate binding site [chemical binding]; other site 416870005868 CoA binding site [chemical binding]; other site 416870005869 Domain of unknown function (DUF4343); Region: DUF4343; pfam14243 416870005870 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 416870005871 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 416870005872 RNase E interface [polypeptide binding]; other site 416870005873 trimer interface [polypeptide binding]; other site 416870005874 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 416870005875 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 416870005876 RNase E interface [polypeptide binding]; other site 416870005877 trimer interface [polypeptide binding]; other site 416870005878 active site 416870005879 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 416870005880 putative nucleic acid binding region [nucleotide binding]; other site 416870005881 G-X-X-G motif; other site 416870005882 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 416870005883 RNA binding site [nucleotide binding]; other site 416870005884 domain interface; other site 416870005885 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02458 416870005886 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 416870005887 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 416870005888 active site 416870005889 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 416870005890 Ligand Binding Site [chemical binding]; other site 416870005891 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 416870005892 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 416870005893 catalytic residue [active] 416870005894 Putative amino acid metabolism; Region: DUF1831; pfam08866 416870005895 elongation factor Tu; Reviewed; Region: PRK00049 416870005896 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 416870005897 G1 box; other site 416870005898 GEF interaction site [polypeptide binding]; other site 416870005899 GTP/Mg2+ binding site [chemical binding]; other site 416870005900 Switch I region; other site 416870005901 G2 box; other site 416870005902 G3 box; other site 416870005903 Switch II region; other site 416870005904 G4 box; other site 416870005905 G5 box; other site 416870005906 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 416870005907 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 416870005908 Antibiotic Binding Site [chemical binding]; other site 416870005909 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 416870005910 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 416870005911 active site 416870005912 HIGH motif; other site 416870005913 nucleotide binding site [chemical binding]; other site 416870005914 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 416870005915 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 416870005916 active site 416870005917 KMSKS motif; other site 416870005918 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 416870005919 tRNA binding surface [nucleotide binding]; other site 416870005920 anticodon binding site; other site 416870005921 DivIVA protein; Region: DivIVA; pfam05103 416870005922 DivIVA domain; Region: DivI1A_domain; TIGR03544 416870005923 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 416870005924 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 416870005925 RNA binding surface [nucleotide binding]; other site 416870005926 YGGT family; Region: YGGT; pfam02325 416870005927 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 416870005928 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 416870005929 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 416870005930 catalytic residue [active] 416870005931 cell division protein FtsZ; Validated; Region: PRK09330 416870005932 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 416870005933 nucleotide binding site [chemical binding]; other site 416870005934 SulA interaction site; other site 416870005935 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 416870005936 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 416870005937 nucleotide binding site [chemical binding]; other site 416870005938 Cell division protein FtsA; Region: FtsA; pfam14450 416870005939 Domain of unknown function (DUF3484); Region: DUF3484; pfam11983 416870005940 EDD domain protein, DegV family; Region: DegV; TIGR00762 416870005941 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 416870005942 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 416870005943 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 416870005944 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 416870005945 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 416870005946 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 416870005947 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 416870005948 active site 416870005949 catalytic tetrad [active] 416870005950 Major Facilitator Superfamily; Region: MFS_1; pfam07690 416870005951 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 416870005952 putative substrate translocation pore; other site 416870005953 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 416870005954 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416870005955 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416870005956 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 416870005957 dimerization interface [polypeptide binding]; other site 416870005958 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 416870005959 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 416870005960 DNA binding residues [nucleotide binding] 416870005961 putative dimer interface [polypeptide binding]; other site 416870005962 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 416870005963 trimer interface [polypeptide binding]; other site 416870005964 active site 416870005965 G bulge; other site 416870005966 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 416870005967 Zn2+ binding site [ion binding]; other site 416870005968 Mg2+ binding site [ion binding]; other site 416870005969 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 416870005970 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 416870005971 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 416870005972 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 416870005973 dimer interface [polypeptide binding]; other site 416870005974 ADP-ribose binding site [chemical binding]; other site 416870005975 active site 416870005976 nudix motif; other site 416870005977 metal binding site [ion binding]; metal-binding site 416870005978 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 416870005979 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 416870005980 Substrate binding site; other site 416870005981 Mg++ binding site; other site 416870005982 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 416870005983 active site 416870005984 substrate binding site [chemical binding]; other site 416870005985 CoA binding site [chemical binding]; other site 416870005986 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 416870005987 pyrroline-5-carboxylate reductase; Region: PLN02688 416870005988 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 416870005989 16S/18S rRNA binding site [nucleotide binding]; other site 416870005990 S13e-L30e interaction site [polypeptide binding]; other site 416870005991 25S rRNA binding site [nucleotide binding]; other site 416870005992 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 416870005993 Catalytic domain of Protein Kinases; Region: PKc; cd00180 416870005994 active site 416870005995 ATP binding site [chemical binding]; other site 416870005996 substrate binding site [chemical binding]; other site 416870005997 activation loop (A-loop); other site 416870005998 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 416870005999 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 416870006000 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 416870006001 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 416870006002 active site 416870006003 16S rRNA methyltransferase B; Provisional; Region: PRK14902 416870006004 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 416870006005 putative RNA binding site [nucleotide binding]; other site 416870006006 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 416870006007 S-adenosylmethionine binding site [chemical binding]; other site 416870006008 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 416870006009 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 416870006010 active site 416870006011 phage holin, LL-H family; Region: holin_LLH; TIGR01673 416870006012 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 416870006013 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 416870006014 Head domain of virus receptor-binding proteins (RBP); Region: RBP-H; cd07964 416870006015 trimer interface [polypeptide binding]; other site 416870006016 Phage tail protein; Region: Sipho_tail; cl17486 416870006017 Phage tail protein; Region: Sipho_tail; pfam05709 416870006018 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 416870006019 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 416870006020 N-acetyl-D-glucosamine binding site [chemical binding]; other site 416870006021 catalytic residue [active] 416870006022 Protein of unknown function (DUF1268); Region: DUF1268; pfam06896 416870006023 Phage major tail protein; Region: Phage_tail; pfam04630 416870006024 Protein of unknown function (DUF806); Region: DUF806; pfam05657 416870006025 Bacteriophage protein of unknown function (DUF646); Region: DUF646; pfam04883 416870006026 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 416870006027 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 416870006028 oligomerization interface [polypeptide binding]; other site 416870006029 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 416870006030 Phage capsid family; Region: Phage_capsid; pfam05065 416870006031 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 416870006032 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 416870006033 oligomer interface [polypeptide binding]; other site 416870006034 active site residues [active] 416870006035 Phage-related protein [Function unknown]; Region: COG4695 416870006036 Phage portal protein; Region: Phage_portal; pfam04860 416870006037 Protein of unknown function (DUF1056); Region: DUF1056; pfam06341 416870006038 Phage Terminase; Region: Terminase_1; pfam03354 416870006039 Phage terminase, small subunit; Region: Terminase_4; pfam05119 416870006040 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 416870006041 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 416870006042 active site 416870006043 Protein of unknown function (DUF722); Region: DUF722; pfam05263 416870006044 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 416870006045 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 416870006046 Walker A motif; other site 416870006047 ATP binding site [chemical binding]; other site 416870006048 Walker B motif; other site 416870006049 arginine finger; other site 416870006050 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 416870006051 Integrase core domain; Region: rve; pfam00665 416870006052 Protein of unknown function (DUF1140); Region: DUF1140; pfam06600 416870006053 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 416870006054 trimer interface [polypeptide binding]; other site 416870006055 active site 416870006056 Protein of unknown function (DUF1642); Region: DUF1642; pfam07852 416870006057 Protein of unknown function (DUF1125); Region: DUF1125; pfam06563 416870006058 Protein of unknown function (DUF1031); Region: DUF1031; pfam06275 416870006059 Protein of unknown function (DUF1064); Region: DUF1064; pfam06356 416870006060 Putative replisome organiser protein C-terminus; Region: Rep_Org_C; pfam06926 416870006061 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 416870006062 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 416870006063 dimer interface [polypeptide binding]; other site 416870006064 ssDNA binding site [nucleotide binding]; other site 416870006065 tetramer (dimer of dimers) interface [polypeptide binding]; other site 416870006066 Rad52/22 family double-strand break repair protein; Region: Rad52_Rad22; cl01936 416870006067 Rad52/22 family double-strand break repair protein; Region: Rad52_Rad22; cl01936 416870006068 Hypothetical protein (DUF2513); Region: DUF2513; pfam10711 416870006069 Protein of unknown function (DUF2829); Region: DUF2829; pfam11195 416870006070 Prophage antirepressor [Transcription]; Region: COG3617 416870006071 BRO family, N-terminal domain; Region: Bro-N; smart01040 416870006072 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 416870006073 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 416870006074 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 416870006075 non-specific DNA binding site [nucleotide binding]; other site 416870006076 salt bridge; other site 416870006077 sequence-specific DNA binding site [nucleotide binding]; other site 416870006078 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 416870006079 non-specific DNA binding site [nucleotide binding]; other site 416870006080 salt bridge; other site 416870006081 sequence-specific DNA binding site [nucleotide binding]; other site 416870006082 Domain of unknown function (DUF955); Region: DUF955; cl01076 416870006083 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 416870006084 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 416870006085 Int/Topo IB signature motif; other site 416870006086 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 416870006087 Small integral membrane protein (DUF2273); Region: DUF2273; cl11575 416870006088 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 416870006089 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 416870006090 putative active site [active] 416870006091 substrate binding site [chemical binding]; other site 416870006092 putative cosubstrate binding site; other site 416870006093 catalytic site [active] 416870006094 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 416870006095 substrate binding site [chemical binding]; other site 416870006096 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 416870006097 dimer interface [polypeptide binding]; other site 416870006098 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 416870006099 nudix motif; other site 416870006100 SnoaL-like domain; Region: SnoaL_2; pfam12680 416870006101 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 416870006102 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 416870006103 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 416870006104 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 416870006105 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 416870006106 ATP binding site [chemical binding]; other site 416870006107 putative Mg++ binding site [ion binding]; other site 416870006108 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 416870006109 nucleotide binding region [chemical binding]; other site 416870006110 ATP-binding site [chemical binding]; other site 416870006111 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 416870006112 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 416870006113 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 416870006114 catalytic site [active] 416870006115 G-X2-G-X-G-K; other site 416870006116 phosphodiesterase; Provisional; Region: PRK12704 416870006117 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 416870006118 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 416870006119 Zn2+ binding site [ion binding]; other site 416870006120 Mg2+ binding site [ion binding]; other site 416870006121 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 416870006122 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 416870006123 active site 416870006124 trimer interface [polypeptide binding]; other site 416870006125 allosteric site; other site 416870006126 active site lid [active] 416870006127 S-adenosylmethionine synthetase; Validated; Region: PRK05250 416870006128 S-adenosylmethionine synthetase; Validated; Region: PRK05250 416870006129 S-adenosylmethionine synthetase; Validated; Region: PRK05250 416870006130 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 416870006131 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 416870006132 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 416870006133 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 416870006134 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 416870006135 S-adenosylmethionine binding site [chemical binding]; other site 416870006136 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 416870006137 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 416870006138 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 416870006139 Putative stress-responsive transcriptional regulator [Transcription / Signal transduction mechanisms]; Region: PspC; COG1983 416870006140 Uncharacterized conserved protein [Function unknown]; Region: COG3595 416870006141 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 416870006142 N-acetylmuramoyl-L-alanine amidase; Validated; Region: PRK08581 416870006143 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 416870006144 CHAP domain; Region: CHAP; pfam05257 416870006145 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 416870006146 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 416870006147 intersubunit interface [polypeptide binding]; other site 416870006148 active site 416870006149 zinc binding site [ion binding]; other site 416870006150 Na+ binding site [ion binding]; other site 416870006151 Predicted membrane protein [Function unknown]; Region: COG2860 416870006152 UPF0126 domain; Region: UPF0126; pfam03458 416870006153 UPF0126 domain; Region: UPF0126; pfam03458 416870006154 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 416870006155 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 416870006156 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 416870006157 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 416870006158 active site 416870006159 dimer interface [polypeptide binding]; other site 416870006160 motif 1; other site 416870006161 motif 2; other site 416870006162 motif 3; other site 416870006163 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 416870006164 anticodon binding site; other site 416870006165 ATP cone domain; Region: ATP-cone; pfam03477 416870006166 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; cl15845 416870006167 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 416870006168 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 416870006169 dimer interface [polypeptide binding]; other site 416870006170 FMN binding site [chemical binding]; other site 416870006171 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416870006172 Transposase; Region: HTH_Tnp_1; pfam01527 416870006173 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 416870006174 HTH-like domain; Region: HTH_21; pfam13276 416870006175 Integrase core domain; Region: rve; pfam00665 416870006176 Integrase core domain; Region: rve_3; pfam13683 416870006177 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416870006178 Helix-turn-helix domain; Region: HTH_28; pfam13518 416870006179 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 416870006180 Helix-turn-helix domain; Region: HTH_28; pfam13518 416870006181 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 416870006182 active site 416870006183 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 416870006184 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 416870006185 cystathionine gamma-synthase; Reviewed; Region: PRK07269 416870006186 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 416870006187 homodimer interface [polypeptide binding]; other site 416870006188 substrate-cofactor binding pocket; other site 416870006189 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416870006190 catalytic residue [active] 416870006191 Homoserine trans-succinylase [Amino acid transport and metabolism]; Region: MetA; COG1897 416870006192 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 416870006193 proposed active site lysine [active] 416870006194 conserved cys residue [active] 416870006195 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 416870006196 nudix motif; other site 416870006197 Predicted permeases [General function prediction only]; Region: COG0679 416870006198 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 416870006199 active site 416870006200 catalytic residues [active] 416870006201 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 416870006202 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is...; Region: YhaM_OBF_like; cd04492 416870006203 generic binding surface II; other site 416870006204 generic binding surface I; other site 416870006205 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 416870006206 Zn2+ binding site [ion binding]; other site 416870006207 Mg2+ binding site [ion binding]; other site 416870006208 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 416870006209 RmuC family; Region: RmuC; pfam02646 416870006210 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 416870006211 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 416870006212 active site 416870006213 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 416870006214 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 416870006215 substrate binding site [chemical binding]; other site 416870006216 hexamer interface [polypeptide binding]; other site 416870006217 metal binding site [ion binding]; metal-binding site 416870006218 GTPase RsgA; Reviewed; Region: PRK00098 416870006219 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 416870006220 RNA binding site [nucleotide binding]; other site 416870006221 homodimer interface [polypeptide binding]; other site 416870006222 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 416870006223 GTPase/Zn-binding domain interface [polypeptide binding]; other site 416870006224 GTP/Mg2+ binding site [chemical binding]; other site 416870006225 G4 box; other site 416870006226 G1 box; other site 416870006227 Switch I region; other site 416870006228 G2 box; other site 416870006229 G3 box; other site 416870006230 Switch II region; other site 416870006231 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 416870006232 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 416870006233 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 416870006234 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 416870006235 putative tRNA-binding site [nucleotide binding]; other site 416870006236 B3/4 domain; Region: B3_4; pfam03483 416870006237 tRNA synthetase B5 domain; Region: B5; smart00874 416870006238 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 416870006239 dimer interface [polypeptide binding]; other site 416870006240 motif 1; other site 416870006241 motif 3; other site 416870006242 motif 2; other site 416870006243 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 416870006244 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 416870006245 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 416870006246 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 416870006247 dimer interface [polypeptide binding]; other site 416870006248 motif 1; other site 416870006249 active site 416870006250 motif 2; other site 416870006251 motif 3; other site 416870006252 Phenolic acid decarboxylase (PAD); Region: PA_decarbox; cl01382 416870006253 Predicted transcriptional regulators [Transcription]; Region: COG1695 416870006254 Transcriptional regulator PadR-like family; Region: PadR; cl17335 416870006255 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 416870006256 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 416870006257 Glycosyl hydrolases family 18; Region: Glyco_hydro_18; pfam00704 416870006258 putative active site [active] 416870006259 Uncharacterized protein contain chitin-binding domain type 3 [General function prediction only]; Region: COG3979 416870006260 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 416870006261 Interdomain contacts; other site 416870006262 Cytokine receptor motif; other site 416870006263 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 416870006264 aromatic chitin/cellulose binding site residues [chemical binding]; other site 416870006265 Chitin binding domain; Region: Chitin_bind_3; pfam03067 416870006266 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 416870006267 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 416870006268 GDP-binding site [chemical binding]; other site 416870006269 ACT binding site; other site 416870006270 IMP binding site; other site 416870006271 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 416870006272 Cadmium resistance transporter; Region: Cad; pfam03596 416870006273 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 416870006274 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 416870006275 dimerization interface [polypeptide binding]; other site 416870006276 domain crossover interface; other site 416870006277 redox-dependent activation switch; other site 416870006278 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 416870006279 RibD C-terminal domain; Region: RibD_C; cl17279 416870006280 Protein of unknown function (DUF805); Region: DUF805; pfam05656 416870006281 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 416870006282 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 416870006283 FMN binding site [chemical binding]; other site 416870006284 active site 416870006285 catalytic residues [active] 416870006286 substrate binding site [chemical binding]; other site 416870006287 Uncharacterized conserved protein [Function unknown]; Region: COG1284 416870006288 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 416870006289 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 416870006290 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 416870006291 Uncharacterized conserved protein [Function unknown]; Region: COG1284 416870006292 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 416870006293 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 416870006294 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 416870006295 Uncharacterized conserved protein [Function unknown]; Region: COG1284 416870006296 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 416870006297 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 416870006298 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 416870006299 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 416870006300 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 416870006301 dimer interface [polypeptide binding]; other site 416870006302 anticodon binding site; other site 416870006303 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 416870006304 homodimer interface [polypeptide binding]; other site 416870006305 motif 1; other site 416870006306 active site 416870006307 motif 2; other site 416870006308 GAD domain; Region: GAD; pfam02938 416870006309 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 416870006310 active site 416870006311 motif 3; other site 416870006312 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 416870006313 nucleotide binding site/active site [active] 416870006314 HIT family signature motif; other site 416870006315 catalytic residue [active] 416870006316 histidyl-tRNA synthetase; Region: hisS; TIGR00442 416870006317 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 416870006318 dimer interface [polypeptide binding]; other site 416870006319 motif 1; other site 416870006320 active site 416870006321 motif 2; other site 416870006322 motif 3; other site 416870006323 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 416870006324 anticodon binding site; other site 416870006325 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 416870006326 non-specific DNA binding site [nucleotide binding]; other site 416870006327 salt bridge; other site 416870006328 sequence-specific DNA binding site [nucleotide binding]; other site 416870006329 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 416870006330 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 416870006331 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 416870006332 Helix-turn-helix domain; Region: HTH_25; pfam13413 416870006333 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 416870006334 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 416870006335 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 416870006336 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 416870006337 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 416870006338 S4-like RNA binding protein [Replication, recombination, and repair]; Region: COG2501 416870006339 recF protein; Region: recf; TIGR00611 416870006340 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 416870006341 Walker A/P-loop; other site 416870006342 ATP binding site [chemical binding]; other site 416870006343 Q-loop/lid; other site 416870006344 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 416870006345 ABC transporter signature motif; other site 416870006346 Walker B; other site 416870006347 D-loop; other site 416870006348 H-loop/switch region; other site 416870006349 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 416870006350 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 416870006351 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 416870006352 DNA binding residues [nucleotide binding] 416870006353 putative dimer interface [polypeptide binding]; other site 416870006354 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 416870006355 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 416870006356 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 416870006357 NAD binding site [chemical binding]; other site 416870006358 homodimer interface [polypeptide binding]; other site 416870006359 active site 416870006360 substrate binding site [chemical binding]; other site 416870006361 galactose-1-phosphate uridylyltransferase, family 2; Region: galT_2; TIGR01239 416870006362 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 416870006363 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 416870006364 galactokinase; Provisional; Region: PRK05322 416870006365 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 416870006366 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 416870006367 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 416870006368 active site 416870006369 catalytic residues [active] 416870006370 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 416870006371 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 416870006372 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 416870006373 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 416870006374 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 416870006375 putative active site [active] 416870006376 nicotinamide-nucleotide adenylyltransferase, NadR type; Region: nadR_NMN_Atrans; TIGR01526 416870006377 Nicotinamide/nicotinate mononucleotide adenylyltransferase of bifunctional NadR-like proteins; Region: NMNAT_NadR; cd02167 416870006378 active site 416870006379 (T/H)XGH motif; other site 416870006380 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 416870006381 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 416870006382 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 416870006383 NAD binding site [chemical binding]; other site 416870006384 ligand binding site [chemical binding]; other site 416870006385 catalytic site [active] 416870006386 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 416870006387 Peptidase family U32; Region: Peptidase_U32; pfam01136 416870006388 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 416870006389 Peptidase family U32; Region: Peptidase_U32; pfam01136 416870006390 Protein of unknown function (DUF3270); Region: DUF3270; pfam11674 416870006391 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 416870006392 Methyltransferase domain; Region: Methyltransf_11; pfam08241 416870006393 AAA domain; Region: AAA_23; pfam13476 416870006394 AAA domain; Region: AAA_21; pfam13304 416870006395 Phage terminase, small subunit [DNA replication, recombination, and repair]; Region: XtmA; COG3728 416870006396 Phage associated DNA primase [General function prediction only]; Region: COG3378 416870006397 D5 N terminal like; Region: D5_N; smart00885 416870006398 Poxvirus D5 protein-like; Region: Pox_D5; pfam03288 416870006399 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 416870006400 polymerase nucleotide-binding site; other site 416870006401 DNA-binding residues [nucleotide binding]; DNA binding site 416870006402 nucleotide binding site [chemical binding]; other site 416870006403 primase nucleotide-binding site [nucleotide binding]; other site 416870006404 Primase C terminal 1 (PriCT-1); Region: PriCT_1; smart00942 416870006405 Uncharacterized phage-encoded protein [Function unknown]; Region: COG3646 416870006406 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 416870006407 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 416870006408 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 416870006409 non-specific DNA binding site [nucleotide binding]; other site 416870006410 salt bridge; other site 416870006411 sequence-specific DNA binding site [nucleotide binding]; other site 416870006412 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 416870006413 Uncharacterized conserved protein [Function unknown]; Region: COG4127 416870006414 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 416870006415 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 416870006416 Int/Topo IB signature motif; other site 416870006417 CutC family; Region: CutC; pfam03932 416870006418 Predicted ABC-type exoprotein transport system, permease component [Intracellular trafficking and secretion]; Region: EcsB; COG4473 416870006419 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 416870006420 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 416870006421 Walker A/P-loop; other site 416870006422 ATP binding site [chemical binding]; other site 416870006423 Q-loop/lid; other site 416870006424 ABC transporter signature motif; other site 416870006425 Walker B; other site 416870006426 D-loop; other site 416870006427 H-loop/switch region; other site 416870006428 Membrane domain of glycerophosphoryl diester phosphodiesterase; Region: GPDPase_memb; cl01974 416870006429 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 416870006430 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 416870006431 putative active site [active] 416870006432 catalytic site [active] 416870006433 putative metal binding site [ion binding]; other site 416870006434 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 416870006435 HIT family signature motif; other site 416870006436 catalytic residue [active] 416870006437 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 416870006438 mRNA/rRNA interface [nucleotide binding]; other site 416870006439 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 416870006440 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 416870006441 23S rRNA interface [nucleotide binding]; other site 416870006442 L7/L12 interface [polypeptide binding]; other site 416870006443 putative thiostrepton binding site; other site 416870006444 L25 interface [polypeptide binding]; other site 416870006445 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 416870006446 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 416870006447 Walker A/P-loop; other site 416870006448 ATP binding site [chemical binding]; other site 416870006449 Q-loop/lid; other site 416870006450 ABC transporter signature motif; other site 416870006451 Walker B; other site 416870006452 D-loop; other site 416870006453 H-loop/switch region; other site 416870006454 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4479 416870006455 methionine sulfoxide reductase A; Provisional; Region: PRK14054 416870006456 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 416870006457 S1 domain; Region: S1_2; pfam13509 416870006458 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 416870006459 RNA binding site [nucleotide binding]; other site 416870006460 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 416870006461 RNA binding site [nucleotide binding]; other site 416870006462 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 416870006463 Coenzyme A binding pocket [chemical binding]; other site 416870006464 ribosome recycling factor; Reviewed; Region: frr; PRK00083 416870006465 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 416870006466 hinge region; other site 416870006467 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 416870006468 putative nucleotide binding site [chemical binding]; other site 416870006469 uridine monophosphate binding site [chemical binding]; other site 416870006470 homohexameric interface [polypeptide binding]; other site 416870006471 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 416870006472 propionate/acetate kinase; Provisional; Region: PRK12379 416870006473 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 416870006474 propionate/acetate kinase; Provisional; Region: PRK12379 416870006475 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 416870006476 Methyltransferase domain; Region: Methyltransf_26; pfam13659 416870006477 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 416870006478 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 416870006479 G1 box; other site 416870006480 putative GEF interaction site [polypeptide binding]; other site 416870006481 GTP/Mg2+ binding site [chemical binding]; other site 416870006482 Switch I region; other site 416870006483 G2 box; other site 416870006484 G3 box; other site 416870006485 Switch II region; other site 416870006486 G4 box; other site 416870006487 G5 box; other site 416870006488 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 416870006489 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 416870006490 LytTr DNA-binding domain; Region: LytTR; cl04498 416870006491 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4483 416870006492 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 416870006493 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 416870006494 nucleotide binding site [chemical binding]; other site 416870006495 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 416870006496 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 416870006497 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 416870006498 dimerization interface [polypeptide binding]; other site 416870006499 DPS ferroxidase diiron center [ion binding]; other site 416870006500 ion pore; other site 416870006501 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 416870006502 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 416870006503 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 416870006504 active site 416870006505 DNA polymerase IV; Validated; Region: PRK02406 416870006506 DNA binding site [nucleotide binding] 416870006507 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 416870006508 putative deacylase active site [active] 416870006509 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 416870006510 transaminase; Validated; Region: PRK07324 416870006511 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 416870006512 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416870006513 homodimer interface [polypeptide binding]; other site 416870006514 catalytic residue [active] 416870006515 carbamate kinase; Reviewed; Region: PRK12686 416870006516 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 416870006517 putative substrate binding site [chemical binding]; other site 416870006518 nucleotide binding site [chemical binding]; other site 416870006519 nucleotide binding site [chemical binding]; other site 416870006520 homodimer interface [polypeptide binding]; other site 416870006521 carbamate kinase; Reviewed; Region: PRK12686 416870006522 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 416870006523 putative substrate binding site [chemical binding]; other site 416870006524 nucleotide binding site [chemical binding]; other site 416870006525 nucleotide binding site [chemical binding]; other site 416870006526 homodimer interface [polypeptide binding]; other site 416870006527 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 416870006528 ornithine carbamoyltransferase; Validated; Region: PRK02102 416870006529 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 416870006530 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 416870006531 arginine deiminase; Provisional; Region: PRK01388 416870006532 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 416870006533 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 416870006534 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 416870006535 active site 416870006536 HIGH motif; other site 416870006537 KMSK motif region; other site 416870006538 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 416870006539 tRNA binding surface [nucleotide binding]; other site 416870006540 anticodon binding site; other site 416870006541 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 416870006542 arginine repressor; Region: argR_whole; TIGR01529 416870006543 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 416870006544 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 416870006545 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 416870006546 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 416870006547 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 416870006548 SWIM zinc finger; Region: SWIM; pfam04434 416870006549 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 416870006550 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 416870006551 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 416870006552 ATP binding site [chemical binding]; other site 416870006553 putative Mg++ binding site [ion binding]; other site 416870006554 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 416870006555 nucleotide binding region [chemical binding]; other site 416870006556 ATP-binding site [chemical binding]; other site 416870006557 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 416870006558 metal ion-dependent adhesion site (MIDAS); other site 416870006559 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 416870006560 pyruvate oxidase; Region: pyruv_oxi_spxB; TIGR02720 416870006561 PYR/PP interface [polypeptide binding]; other site 416870006562 dimer interface [polypeptide binding]; other site 416870006563 tetramer interface [polypeptide binding]; other site 416870006564 TPP binding site [chemical binding]; other site 416870006565 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 416870006566 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 416870006567 TPP-binding site [chemical binding]; other site 416870006568 Beta-lactamase; Region: Beta-lactamase; pfam00144 416870006569 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 416870006570 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 416870006571 Domain of unknown function (DU1801); Region: DUF1801; cl17490 416870006572 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 416870006573 CAAX protease self-immunity; Region: Abi; pfam02517 416870006574 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 416870006575 amphipathic channel; other site 416870006576 Asn-Pro-Ala signature motifs; other site 416870006577 x-prolyl-dipeptidyl aminopeptidase; Provisional; Region: PRK05371 416870006578 X-Prolyl dipeptidyl aminopeptidase PepX, N-terminal; Region: PepX_N; smart00940 416870006579 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 416870006580 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 416870006581 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 416870006582 catalytic triad [active] 416870006583 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 416870006584 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 416870006585 substrate binding pocket [chemical binding]; other site 416870006586 membrane-bound complex binding site; other site 416870006587 hinge residues; other site 416870006588 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK07251 416870006589 TrkA-N domain; Region: TrkA_N; pfam02254 416870006590 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 416870006591 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 416870006592 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 416870006593 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 416870006594 active site 416870006595 HIGH motif; other site 416870006596 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 416870006597 active site 416870006598 KMSKS motif; other site 416870006599 Isochorismatase family; Region: Isochorismatase; pfam00857 416870006600 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 416870006601 catalytic triad [active] 416870006602 conserved cis-peptide bond; other site 416870006603 Transcriptional regulator [Transcription]; Region: LysR; COG0583 416870006604 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 416870006605 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 416870006606 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 416870006607 active site 416870006608 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 416870006609 Protein of unknown function (DUF1048); Region: DUF1048; pfam06304 416870006610 Protein of unknown function (DUF1048); Region: DUF1048; pfam06304 416870006611 Predicted transcriptional regulators [Transcription]; Region: COG1695 416870006612 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 416870006613 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 416870006614 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 416870006615 putative active site [active] 416870006616 Predicted membrane protein [Function unknown]; Region: COG3619 416870006617 DNA repair protein RadA; Provisional; Region: PRK11823 416870006618 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 416870006619 Walker A motif/ATP binding site; other site 416870006620 ATP binding site [chemical binding]; other site 416870006621 Walker B motif; other site 416870006622 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 416870006623 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 416870006624 active site 416870006625 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 416870006626 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 416870006627 active site 416870006628 motif I; other site 416870006629 motif II; other site 416870006630 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 416870006631 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 416870006632 dimer interface [polypeptide binding]; other site 416870006633 active site 416870006634 Predicted kinase related to galactokinase and mevalonate kinase [General function prediction only]; Region: COG2605 416870006635 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 416870006636 Alpha-1,2-fucosyltransferase; Region: Fut1_Fut2_like; cd11301 416870006637 GDP-Fucose binding site [chemical binding]; other site 416870006638 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 416870006639 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 416870006640 active site 416870006641 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 416870006642 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 416870006643 active site 416870006644 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 416870006645 FemAB family; Region: FemAB; pfam02388 416870006646 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 416870006647 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 416870006648 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 416870006649 alphaNTD homodimer interface [polypeptide binding]; other site 416870006650 alphaNTD - beta interaction site [polypeptide binding]; other site 416870006651 alphaNTD - beta' interaction site [polypeptide binding]; other site 416870006652 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 416870006653 30S ribosomal protein S11; Validated; Region: PRK05309 416870006654 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 416870006655 30S ribosomal protein S13; Region: bact_S13; TIGR03631 416870006656 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 416870006657 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 416870006658 rRNA binding site [nucleotide binding]; other site 416870006659 predicted 30S ribosome binding site; other site 416870006660 adenylate kinase; Reviewed; Region: adk; PRK00279 416870006661 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 416870006662 AMP-binding site [chemical binding]; other site 416870006663 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 416870006664 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 416870006665 SecY translocase; Region: SecY; pfam00344 416870006666 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 416870006667 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 416870006668 23S rRNA binding site [nucleotide binding]; other site 416870006669 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 416870006670 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 416870006671 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 416870006672 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 416870006673 5S rRNA interface [nucleotide binding]; other site 416870006674 L27 interface [polypeptide binding]; other site 416870006675 23S rRNA interface [nucleotide binding]; other site 416870006676 L5 interface [polypeptide binding]; other site 416870006677 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 416870006678 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 416870006679 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 416870006680 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 416870006681 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 416870006682 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 416870006683 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 416870006684 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 416870006685 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 416870006686 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 416870006687 RNA binding site [nucleotide binding]; other site 416870006688 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 416870006689 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 416870006690 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 416870006691 23S rRNA interface [nucleotide binding]; other site 416870006692 putative translocon interaction site; other site 416870006693 signal recognition particle (SRP54) interaction site; other site 416870006694 L23 interface [polypeptide binding]; other site 416870006695 trigger factor interaction site; other site 416870006696 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 416870006697 23S rRNA interface [nucleotide binding]; other site 416870006698 5S rRNA interface [nucleotide binding]; other site 416870006699 putative antibiotic binding site [chemical binding]; other site 416870006700 L25 interface [polypeptide binding]; other site 416870006701 L27 interface [polypeptide binding]; other site 416870006702 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 416870006703 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 416870006704 G-X-X-G motif; other site 416870006705 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 416870006706 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 416870006707 putative translocon binding site; other site 416870006708 protein-rRNA interface [nucleotide binding]; other site 416870006709 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 416870006710 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 416870006711 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 416870006712 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 416870006713 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 416870006714 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 416870006715 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 416870006716 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 416870006717 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 416870006718 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 416870006719 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 416870006720 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 416870006721 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 416870006722 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 416870006723 pyridoxal 5'-phosphate binding site [chemical binding]; other site 416870006724 catalytic residue [active] 416870006725 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 416870006726 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 416870006727 putative homodimer interface [polypeptide binding]; other site 416870006728 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 416870006729 heterodimer interface [polypeptide binding]; other site 416870006730 homodimer interface [polypeptide binding]; other site 416870006731 Preprotein translocase subunit SecE [Intracellular trafficking and secretion]; Region: SecE; COG0690 416870006732 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 416870006733 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 416870006734 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 416870006735 catalytic triad [active] 416870006736 catalytic triad [active] 416870006737 oxyanion hole [active] 416870006738 Transglycosylase; Region: Transgly; pfam00912 416870006739 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 416870006740 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 416870006741 Predicted membrane protein [Function unknown]; Region: COG2323 416870006742 Protein of unknown function (DUF3290); Region: DUF3290; pfam11694 416870006743 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 416870006744 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 416870006745 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 416870006746 active site 416870006747 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 416870006748 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 416870006749 ABC-ATPase subunit interface; other site 416870006750 dimer interface [polypeptide binding]; other site 416870006751 putative PBP binding regions; other site 416870006752 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 416870006753 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 416870006754 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 416870006755 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 416870006756 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 416870006757 metal binding site [ion binding]; metal-binding site 416870006758 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 416870006759 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 416870006760 putative DNA binding site [nucleotide binding]; other site 416870006761 putative Zn2+ binding site [ion binding]; other site 416870006762 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 416870006763 Type II secretory pathway pseudopilin; Region: PulG; pfam11773 416870006764 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 416870006765 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 416870006766 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 416870006767 Type II/IV secretion system protein; Region: T2SE; pfam00437 416870006768 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 416870006769 Walker A motif; other site 416870006770 ATP binding site [chemical binding]; other site 416870006771 Walker B motif; other site 416870006772 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 416870006773 DNA polymerase III, alpha subunit (gram-positive type) [DNA replication, recombination, and repair]; Region: PolC; COG2176 416870006774 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 416870006775 generic binding surface II; other site 416870006776 generic binding surface I; other site 416870006777 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 416870006778 generic binding surface II; other site 416870006779 generic binding surface I; other site 416870006780 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 416870006781 active site 416870006782 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 416870006783 active site 416870006784 catalytic site [active] 416870006785 substrate binding site [chemical binding]; other site 416870006786 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 416870006787 prolyl-tRNA synthetase; Provisional; Region: PRK09194 416870006788 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 416870006789 dimer interface [polypeptide binding]; other site 416870006790 motif 1; other site 416870006791 active site 416870006792 motif 2; other site 416870006793 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 416870006794 putative deacylase active site [active] 416870006795 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 416870006796 active site 416870006797 motif 3; other site 416870006798 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 416870006799 anticodon binding site; other site 416870006800 RIP metalloprotease RseP; Region: TIGR00054 416870006801 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 416870006802 active site 416870006803 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 416870006804 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 416870006805 protein binding site [polypeptide binding]; other site 416870006806 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 416870006807 putative substrate binding region [chemical binding]; other site 416870006808 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 416870006809 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 416870006810 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14830 416870006811 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 416870006812 catalytic residue [active] 416870006813 putative FPP diphosphate binding site; other site 416870006814 putative FPP binding hydrophobic cleft; other site 416870006815 dimer interface [polypeptide binding]; other site 416870006816 putative IPP diphosphate binding site; other site 416870006817 Preprotein translocase subunit; Region: YajC; cl00806 416870006818 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 416870006819 A new structural DNA glycosylase containing HEAT-like repeats; Region: AlkD_like_1; cd07064 416870006820 active site 416870006821 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 416870006822 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 416870006823 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 416870006824 protein binding site [polypeptide binding]; other site 416870006825 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 416870006826 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 416870006827 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 416870006828 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 416870006829 putative ADP-binding pocket [chemical binding]; other site 416870006830 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4703 416870006831 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 416870006832 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 416870006833 S-adenosylmethionine binding site [chemical binding]; other site 416870006834 DNA polymerase I; Provisional; Region: PRK05755 416870006835 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 416870006836 active site 416870006837 metal binding site 1 [ion binding]; metal-binding site 416870006838 putative 5' ssDNA interaction site; other site 416870006839 metal binding site 3; metal-binding site 416870006840 metal binding site 2 [ion binding]; metal-binding site 416870006841 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 416870006842 putative DNA binding site [nucleotide binding]; other site 416870006843 putative metal binding site [ion binding]; other site 416870006844 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 416870006845 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 416870006846 active site 416870006847 DNA binding site [nucleotide binding] 416870006848 catalytic site [active] 416870006849 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 416870006850 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 416870006851 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 416870006852 Negative regulator of septation ring formation [Cell division and chromosome partitioning]; Region: EzrA; COG4477 416870006853 elongation factor Ts; Provisional; Region: tsf; PRK09377 416870006854 UBA/TS-N domain; Region: UBA; pfam00627 416870006855 Elongation factor TS; Region: EF_TS; pfam00889 416870006856 Elongation factor TS; Region: EF_TS; pfam00889 416870006857 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 416870006858 rRNA interaction site [nucleotide binding]; other site 416870006859 S8 interaction site; other site 416870006860 putative laminin-1 binding site; other site 416870006861 3-carboxymuconate cyclase [Carbohydrate transport and metabolism]; Region: COG2706 416870006862 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 416870006863 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 416870006864 putative catalytic cysteine [active] 416870006865 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 416870006866 putative active site [active] 416870006867 metal binding site [ion binding]; metal-binding site 416870006868 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 416870006869 dimer interface [polypeptide binding]; other site 416870006870 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 416870006871 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 416870006872 FeS/SAM binding site; other site 416870006873 Helix-turn-helix domain; Region: HTH_19; pfam12844 416870006874 non-specific DNA binding site [nucleotide binding]; other site 416870006875 salt bridge; other site 416870006876 sequence-specific DNA binding site [nucleotide binding]; other site 416870006877 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 416870006878 Major Facilitator Superfamily; Region: MFS_1; pfam07690 416870006879 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 416870006880 putative substrate translocation pore; other site 416870006881 KxxxW cyclic peptide radical SAM maturase; Region: rSAM_pep_cyc; TIGR04080 416870006882 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 416870006883 FeS/SAM binding site; other site 416870006884 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 416870006885 KxxxW-cyclized secreted peptide; Region: phero_cyc_pep; TIGR04079 416870006886 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 416870006887 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 416870006888 protein binding site [polypeptide binding]; other site 416870006889 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 416870006890 Phosphopantetheine adenylyltransferase [Coenzyme metabolism]; Region: CoaD; COG0669 416870006891 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 416870006892 active site 416870006893 (T/H)XGH motif; other site 416870006894 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 416870006895 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 416870006896 S-adenosylmethionine binding site [chemical binding]; other site 416870006897 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 416870006898 Major Facilitator Superfamily; Region: MFS_1; pfam07690 416870006899 putative substrate translocation pore; other site 416870006900 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 416870006901 Major Facilitator Superfamily; Region: MFS_1; pfam07690 416870006902 putative substrate translocation pore; other site 416870006903 Sigma factor regulator C-terminal; Region: Sigma_reg_C; pfam13791 416870006904 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 416870006905 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 416870006906 active site 416870006907 dimer interface [polypeptide binding]; other site 416870006908 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 416870006909 dimer interface [polypeptide binding]; other site 416870006910 active site 416870006911 Flagellin N-methylase; Region: FliB; pfam03692 416870006912 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 416870006913 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870006914 NAD(P) binding site [chemical binding]; other site 416870006915 active site 416870006916 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 416870006917 non-specific DNA binding site [nucleotide binding]; other site 416870006918 salt bridge; other site 416870006919 sequence-specific DNA binding site [nucleotide binding]; other site 416870006920 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870006921 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 416870006922 NAD(P) binding site [chemical binding]; other site 416870006923 active site 416870006924 Predicted transcriptional regulators [Transcription]; Region: COG1733 416870006925 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 416870006926 putative DNA binding site [nucleotide binding]; other site 416870006927 dimerization interface [polypeptide binding]; other site 416870006928 putative Zn2+ binding site [ion binding]; other site 416870006929 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 416870006930 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 416870006931 active site 416870006932 HIGH motif; other site 416870006933 nucleotide binding site [chemical binding]; other site 416870006934 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 416870006935 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 416870006936 active site 416870006937 KMSKS motif; other site 416870006938 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 416870006939 tRNA binding surface [nucleotide binding]; other site 416870006940 anticodon binding site; other site 416870006941 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 416870006942 Fibronectin-binding protein (FBP); Region: FBP; pfam07299 416870006943 Domain of unknown function (DUF1912); Region: DUF1912; pfam08930 416870006944 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 416870006945 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 416870006946 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 416870006947 Coenzyme A binding pocket [chemical binding]; other site 416870006948 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 416870006949 B3/4 domain; Region: B3_4; pfam03483 416870006950 TRAM domain; Region: TRAM; pfam01938 416870006951 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 416870006952 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 416870006953 S-adenosylmethionine binding site [chemical binding]; other site 416870006954 legume lectins; Region: lectin_L-type; cd01951 416870006955 homotetramer interaction site [polypeptide binding]; other site 416870006956 carbohydrate binding site [chemical binding]; other site 416870006957 metal binding site [ion binding]; metal-binding site 416870006958 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 416870006959 MucBP domain; Region: MucBP; pfam06458 416870006960 MucBP domain; Region: MucBP; pfam06458 416870006961 MucBP domain; Region: MucBP; pfam06458 416870006962 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 416870006963 recombination regulator RecX; Provisional; Region: recX; PRK14135 416870006964 fructuronate transporter; Provisional; Region: PRK10034; cl15264 416870006965 GntP family permease; Region: GntP_permease; pfam02447 416870006966 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 416870006967 Gluconate kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 416870006968 N- and C-terminal domain interface [polypeptide binding]; other site 416870006969 active site 416870006970 catalytic site [active] 416870006971 metal binding site [ion binding]; metal-binding site 416870006972 carbohydrate binding site [chemical binding]; other site 416870006973 ATP binding site [chemical binding]; other site 416870006974 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 416870006975 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 416870006976 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 416870006977 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 416870006978 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 416870006979 putative active site [active] 416870006980 Staphylococcal protein of unknown function (DUF960); Region: DUF960; pfam06124 416870006981 phosphodiesterase YaeI; Provisional; Region: PRK11340 416870006982 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 416870006983 putative active site [active] 416870006984 putative metal binding site [ion binding]; other site 416870006985 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 416870006986 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 416870006987 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 416870006988 dimer interface [polypeptide binding]; other site 416870006989 ssDNA binding site [nucleotide binding]; other site 416870006990 tetramer (dimer of dimers) interface [polypeptide binding]; other site 416870006991 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 416870006992 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 416870006993 Amino acid transporters [Amino acid transport and metabolism]; Region: LysP; COG0833 416870006994 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 416870006995 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 416870006996 Walker A motif; other site 416870006997 ATP binding site [chemical binding]; other site 416870006998 Walker B motif; other site 416870006999 arginine finger; other site 416870007000 Phosphotransferase enzyme family; Region: APH; pfam01636 416870007001 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 416870007002 substrate binding site [chemical binding]; other site 416870007003 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 416870007004 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 416870007005 hypothetical protein; Provisional; Region: PRK07248 416870007006 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 416870007007 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 416870007008 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 416870007009 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 416870007010 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 416870007011 DNA binding residues [nucleotide binding] 416870007012 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 416870007013 Low molecular weight phosphatase family; Region: LMWPc; cd00115 416870007014 active site 416870007015 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 416870007016 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 416870007017 Walker A motif; other site 416870007018 ATP binding site [chemical binding]; other site 416870007019 Walker B motif; other site 416870007020 arginine finger; other site 416870007021 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 416870007022 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 416870007023 RuvA N terminal domain; Region: RuvA_N; pfam01330 416870007024 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 416870007025 helix-hairpin-helix signature motif; other site 416870007026 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 416870007027 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 416870007028 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 416870007029 ATP binding site [chemical binding]; other site 416870007030 Mg2+ binding site [ion binding]; other site 416870007031 G-X-G motif; other site 416870007032 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 416870007033 ATP binding site [chemical binding]; other site 416870007034 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 416870007035 Protein of unknown function (DUF805); Region: DUF805; pfam05656 416870007036 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 416870007037 MutS domain I; Region: MutS_I; pfam01624 416870007038 MutS domain II; Region: MutS_II; pfam05188 416870007039 MutS domain III; Region: MutS_III; pfam05192 416870007040 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 416870007041 Walker A/P-loop; other site 416870007042 ATP binding site [chemical binding]; other site 416870007043 Q-loop/lid; other site 416870007044 ABC transporter signature motif; other site 416870007045 Walker B; other site 416870007046 D-loop; other site 416870007047 H-loop/switch region; other site 416870007048 Predicted membrane protein [Function unknown]; Region: COG4550 416870007049 Transposase, Mutator family; Region: Transposase_mut; pfam00872 416870007050 MULE transposase domain; Region: MULE; pfam10551 416870007051 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 416870007052 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 416870007053 Protein of unknown function (DUF1634); Region: DUF1634; cl01741 416870007054 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 416870007055 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 416870007056 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 416870007057 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 416870007058 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 416870007059 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 416870007060 active site 416870007061 motif I; other site 416870007062 motif II; other site 416870007063 chaperone protein DnaJ; Provisional; Region: PRK14276 416870007064 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 416870007065 HSP70 interaction site [polypeptide binding]; other site 416870007066 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 416870007067 substrate binding site [polypeptide binding]; other site 416870007068 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 416870007069 Zn binding sites [ion binding]; other site 416870007070 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 416870007071 substrate binding site [polypeptide binding]; other site 416870007072 dimer interface [polypeptide binding]; other site 416870007073 aspartate racemase; Region: asp_race; TIGR00035 416870007074 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 416870007075 Predicted ATP-grasp enzyme [General function prediction only]; Region: COG3919 416870007076 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 416870007077 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 416870007078 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 416870007079 active site 416870007080 dimer interface [polypeptide binding]; other site 416870007081 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 416870007082 Ligand Binding Site [chemical binding]; other site 416870007083 Molecular Tunnel; other site 416870007084 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 416870007085 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 416870007086 Surface antigen [General function prediction only]; Region: COG3942 416870007087 CHAP domain; Region: CHAP; pfam05257 416870007088 rod shape-determining protein MreD; Region: MreD; pfam04093 416870007089 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 416870007090 rod shape-determining protein MreC; Region: MreC; pfam04085 416870007091 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 416870007092 nudix motif; other site 416870007093 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 416870007094 tetramer (dimer of dimers) interface [polypeptide binding]; other site 416870007095 active site 416870007096 dimer interface [polypeptide binding]; other site 416870007097 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 416870007098 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 416870007099 ligand binding site [chemical binding]; other site 416870007100 flexible hinge region; other site 416870007101 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 416870007102 putative switch regulator; other site 416870007103 non-specific DNA interactions [nucleotide binding]; other site 416870007104 DNA binding site [nucleotide binding] 416870007105 sequence specific DNA binding site [nucleotide binding]; other site 416870007106 putative cAMP binding site [chemical binding]; other site 416870007107 Major Facilitator Superfamily; Region: MFS_1; pfam07690 416870007108 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 416870007109 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 416870007110 Ligand Binding Site [chemical binding]; other site 416870007111 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 416870007112 nucleotide binding site [chemical binding]; other site 416870007113 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 416870007114 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 416870007115 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 416870007116 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 416870007117 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 416870007118 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 416870007119 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 416870007120 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 416870007121 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 416870007122 RNA binding surface [nucleotide binding]; other site 416870007123 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 416870007124 active site 416870007125 uracil binding [chemical binding]; other site 416870007126 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 416870007127 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 416870007128 trmE is a tRNA modification GTPase; Region: trmE; cd04164 416870007129 G1 box; other site 416870007130 GTP/Mg2+ binding site [chemical binding]; other site 416870007131 Switch I region; other site 416870007132 G2 box; other site 416870007133 Switch II region; other site 416870007134 G3 box; other site 416870007135 G4 box; other site 416870007136 G5 box; other site 416870007137 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 416870007138 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 416870007139 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 416870007140 generic binding surface II; other site 416870007141 ssDNA binding site; other site 416870007142 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 416870007143 ATP binding site [chemical binding]; other site 416870007144 putative Mg++ binding site [ion binding]; other site 416870007145 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 416870007146 nucleotide binding region [chemical binding]; other site 416870007147 ATP-binding site [chemical binding]; other site 416870007148 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 416870007149 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 416870007150 PhnA protein; Region: PhnA; pfam03831 416870007151 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 416870007152 Int/Topo IB signature motif; other site 416870007153 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 416870007154 BRO family, N-terminal domain; Region: Bro-N; smart01040 416870007155 Glucuronate isomerase; Region: UxaC; cl00829 416870007156 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 416870007157 polymerase nucleotide-binding site; other site 416870007158 DNA-binding residues [nucleotide binding]; DNA binding site 416870007159 nucleotide binding site [chemical binding]; other site 416870007160 primase nucleotide-binding site [nucleotide binding]; other site 416870007161 Primase C terminal 1 (PriCT-1); Region: PriCT_1; smart00942 416870007162 Phage associated DNA primase [General function prediction only]; Region: COG3378 416870007163 D5 N terminal like; Region: D5_N; smart00885 416870007164 Poxvirus D5 protein-like; Region: Pox_D5; pfam03288 416870007165 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 416870007166 Protein of unknown function (DUF722); Region: DUF722; pfam05263 416870007167 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 416870007168 Sigma-70, region 4; Region: Sigma70_r4; pfam04545 416870007169 DNA binding residues [nucleotide binding] 416870007170 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 416870007171 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 416870007172 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 416870007173 seryl-tRNA synthetase; Region: serS; TIGR00414 416870007174 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 416870007175 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 416870007176 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 416870007177 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 416870007178 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 416870007179 motif II; other site 416870007180 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 416870007181 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 416870007182 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 416870007183 oxidoreductase; Provisional; Region: PRK06196 416870007184 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 416870007185 NAD(P) binding site [chemical binding]; other site 416870007186 active site 416870007187 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 416870007188 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 416870007189 23S rRNA interface [nucleotide binding]; other site 416870007190 L3 interface [polypeptide binding]; other site 416870007191 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 416870007192 FtsX-like permease family; Region: FtsX; pfam02687 416870007193 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 416870007194 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 416870007195 Walker A/P-loop; other site 416870007196 ATP binding site [chemical binding]; other site 416870007197 Q-loop/lid; other site 416870007198 ABC transporter signature motif; other site 416870007199 Walker B; other site 416870007200 D-loop; other site 416870007201 H-loop/switch region; other site 416870007202 ribonuclease HIII; Provisional; Region: PRK00996 416870007203 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 416870007204 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 416870007205 RNA/DNA hybrid binding site [nucleotide binding]; other site 416870007206 active site 416870007207 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 416870007208 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 416870007209 Catalytic site [active] 416870007210 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 416870007211 pur operon repressor; Provisional; Region: PRK09213 416870007212 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 416870007213 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 416870007214 active site 416870007215 elongation factor G; Reviewed; Region: PRK00007 416870007216 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 416870007217 G1 box; other site 416870007218 putative GEF interaction site [polypeptide binding]; other site 416870007219 GTP/Mg2+ binding site [chemical binding]; other site 416870007220 Switch I region; other site 416870007221 G2 box; other site 416870007222 G3 box; other site 416870007223 Switch II region; other site 416870007224 G4 box; other site 416870007225 G5 box; other site 416870007226 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 416870007227 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 416870007228 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 416870007229 30S ribosomal protein S7; Validated; Region: PRK05302 416870007230 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 416870007231 S17 interaction site [polypeptide binding]; other site 416870007232 S8 interaction site; other site 416870007233 16S rRNA interaction site [nucleotide binding]; other site 416870007234 streptomycin interaction site [chemical binding]; other site 416870007235 23S rRNA interaction site [nucleotide binding]; other site 416870007236 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 416870007237 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 416870007238 Beta-lactamase; Region: Beta-lactamase; cl17358 416870007239 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 416870007240 Putative glucose uptake permease [Carbohydrate transport and metabolism]; Region: GlcU; COG4975 416870007241 Putative rRNA methylase; Region: rRNA_methylase; pfam06962 416870007242 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242