-- dump date 20140619_125156 -- class Genbank::misc_feature -- table misc_feature_note -- id note 420890000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 420890000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 420890000003 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 420890000004 Walker A motif; other site 420890000005 ATP binding site [chemical binding]; other site 420890000006 Walker B motif; other site 420890000007 arginine finger; other site 420890000008 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 420890000009 DnaA box-binding interface [nucleotide binding]; other site 420890000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 420890000011 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 420890000012 putative DNA binding surface [nucleotide binding]; other site 420890000013 dimer interface [polypeptide binding]; other site 420890000014 beta-clamp/clamp loader binding surface; other site 420890000015 beta-clamp/translesion DNA polymerase binding surface; other site 420890000016 ATP-dependent nuclease, subunit B [DNA replication, recombination, and repair]; Region: AddB; COG3857 420890000017 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 420890000018 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 420890000019 Part of AAA domain; Region: AAA_19; pfam13245 420890000020 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 420890000021 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 420890000022 GTP-binding protein YchF; Reviewed; Region: PRK09601 420890000023 YchF GTPase; Region: YchF; cd01900 420890000024 G1 box; other site 420890000025 GTP/Mg2+ binding site [chemical binding]; other site 420890000026 Switch I region; other site 420890000027 G2 box; other site 420890000028 Switch II region; other site 420890000029 G3 box; other site 420890000030 G4 box; other site 420890000031 G5 box; other site 420890000032 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 420890000033 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 420890000034 putative active site [active] 420890000035 catalytic residue [active] 420890000036 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 420890000037 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 420890000038 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 420890000039 ATP binding site [chemical binding]; other site 420890000040 putative Mg++ binding site [ion binding]; other site 420890000041 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 420890000042 nucleotide binding region [chemical binding]; other site 420890000043 ATP-binding site [chemical binding]; other site 420890000044 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 420890000045 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 420890000046 RNA binding surface [nucleotide binding]; other site 420890000047 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 420890000048 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 420890000049 RNA binding site [nucleotide binding]; other site 420890000050 Aromatic ring hydroxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2368 420890000051 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 420890000052 SH3-like domain; Region: SH3_8; pfam13457 420890000053 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 420890000054 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 420890000055 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 420890000056 Ligand Binding Site [chemical binding]; other site 420890000057 TilS substrate C-terminal domain; Region: TilS_C; smart00977 420890000058 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 420890000059 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 420890000060 active site 420890000061 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 420890000062 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 420890000063 Walker A motif; other site 420890000064 ATP binding site [chemical binding]; other site 420890000065 Walker B motif; other site 420890000066 arginine finger; other site 420890000067 Peptidase family M41; Region: Peptidase_M41; pfam01434 420890000068 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 420890000069 non-specific DNA binding site [nucleotide binding]; other site 420890000070 salt bridge; other site 420890000071 sequence-specific DNA binding site [nucleotide binding]; other site 420890000072 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 420890000073 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 420890000074 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 420890000075 Walker A motif; other site 420890000076 ATP binding site [chemical binding]; other site 420890000077 Walker B motif; other site 420890000078 arginine finger; other site 420890000079 Domain of unknown function (DUF955); Region: DUF955; cl01076 420890000080 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 420890000081 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 420890000082 non-specific DNA binding site [nucleotide binding]; other site 420890000083 salt bridge; other site 420890000084 sequence-specific DNA binding site [nucleotide binding]; other site 420890000085 Recombination protein O N terminal; Region: RecO_N; pfam11967 420890000086 DNA repair protein RecO; Region: reco; TIGR00613 420890000087 Recombination protein O C terminal; Region: RecO_C; pfam02565 420890000088 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 420890000089 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 420890000090 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 420890000091 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 420890000092 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 420890000093 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 420890000094 E3 interaction surface; other site 420890000095 lipoyl attachment site [posttranslational modification]; other site 420890000096 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 420890000097 E3 interaction surface; other site 420890000098 lipoyl attachment site [posttranslational modification]; other site 420890000099 e3 binding domain; Region: E3_binding; pfam02817 420890000100 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 420890000101 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 420890000102 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 420890000103 alpha subunit interface [polypeptide binding]; other site 420890000104 TPP binding site [chemical binding]; other site 420890000105 heterodimer interface [polypeptide binding]; other site 420890000106 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 420890000107 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 420890000108 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 420890000109 tetramer interface [polypeptide binding]; other site 420890000110 TPP-binding site [chemical binding]; other site 420890000111 heterodimer interface [polypeptide binding]; other site 420890000112 phosphorylation loop region [posttranslational modification] 420890000113 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 420890000114 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 420890000115 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 420890000116 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 420890000117 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 420890000118 active site 420890000119 catalytic site [active] 420890000120 metal binding site [ion binding]; metal-binding site 420890000121 dimer interface [polypeptide binding]; other site 420890000122 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 420890000123 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 420890000124 Zn2+ binding site [ion binding]; other site 420890000125 Mg2+ binding site [ion binding]; other site 420890000126 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 420890000127 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 420890000128 active site 420890000129 HIGH motif; other site 420890000130 dimer interface [polypeptide binding]; other site 420890000131 KMSKS motif; other site 420890000132 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 420890000133 magnesium-transporting ATPase MgtA; Provisional; Region: PRK10517 420890000134 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 420890000135 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 420890000136 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 420890000137 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 420890000138 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 420890000139 putative phosphate acyltransferase; Provisional; Region: PRK05331 420890000140 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 420890000141 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 420890000142 active site 420890000143 motif I; other site 420890000144 motif II; other site 420890000145 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 420890000146 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 420890000147 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 420890000148 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 420890000149 ABC transporter; Region: ABC_tran_2; pfam12848 420890000150 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 420890000151 Flagellin N-methylase; Region: FliB; pfam03692 420890000152 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 420890000153 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 420890000154 DNA binding residues [nucleotide binding] 420890000155 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 420890000156 Predicted membrane protein [Function unknown]; Region: COG1511 420890000157 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 420890000158 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 420890000159 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 420890000160 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 420890000161 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 420890000162 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 420890000163 active site 420890000164 benzoate transport; Region: 2A0115; TIGR00895 420890000165 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 420890000166 putative substrate translocation pore; other site 420890000167 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 420890000168 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 420890000169 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 420890000170 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 420890000171 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 420890000172 recombination factor protein RarA; Reviewed; Region: PRK13342 420890000173 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 420890000174 Walker A motif; other site 420890000175 ATP binding site [chemical binding]; other site 420890000176 Walker B motif; other site 420890000177 arginine finger; other site 420890000178 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 420890000179 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 420890000180 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 420890000181 Coenzyme A binding pocket [chemical binding]; other site 420890000182 Protein of unknown function (DUF3013); Region: DUF3013; pfam11217 420890000183 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 420890000184 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 420890000185 S-adenosylmethionine binding site [chemical binding]; other site 420890000186 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 420890000187 RNA methyltransferase, RsmE family; Region: TIGR00046 420890000188 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 420890000189 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 420890000190 Zn2+ binding site [ion binding]; other site 420890000191 Mg2+ binding site [ion binding]; other site 420890000192 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 420890000193 synthetase active site [active] 420890000194 NTP binding site [chemical binding]; other site 420890000195 metal binding site [ion binding]; metal-binding site 420890000196 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 420890000197 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 420890000198 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 420890000199 putative active site [active] 420890000200 dimerization interface [polypeptide binding]; other site 420890000201 putative tRNAtyr binding site [nucleotide binding]; other site 420890000202 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 420890000203 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 420890000204 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 420890000205 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 420890000206 putative acyl-acceptor binding pocket; other site 420890000207 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 420890000208 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 420890000209 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 420890000210 nucleotide binding region [chemical binding]; other site 420890000211 ATP-binding site [chemical binding]; other site 420890000212 SEC-C motif; Region: SEC-C; pfam02810 420890000213 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroG; cl17260 420890000214 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 420890000215 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 420890000216 dimerization domain swap beta strand [polypeptide binding]; other site 420890000217 regulatory protein interface [polypeptide binding]; other site 420890000218 active site 420890000219 regulatory phosphorylation site [posttranslational modification]; other site 420890000220 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 420890000221 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 420890000222 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 420890000223 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 420890000224 hypothetical protein; Validated; Region: PRK00153 420890000225 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 420890000226 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 420890000227 ribonuclease P; Reviewed; Region: rnpA; PRK00499 420890000228 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 420890000229 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 420890000230 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 420890000231 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 420890000232 G-X-X-G motif; other site 420890000233 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 420890000234 RxxxH motif; other site 420890000235 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 420890000236 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 420890000237 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 420890000238 active site 420890000239 catalytic tetrad [active] 420890000240 hypothetical protein; Provisional; Region: PRK05473 420890000241 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 420890000242 hypothetical protein; Provisional; Region: PRK13678 420890000243 2-acyl-glycerophospho-ethanolamine acyltransferase; Validated; Region: PRK08633 420890000244 Pleiotropic transcriptional repressor [Transcription]; Region: CodY; COG4465 420890000245 CodY GAF-like domain; Region: CodY; pfam06018 420890000246 CodY helix-turn-helix domain; Region: HTH_CodY; pfam08222 420890000247 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 420890000248 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 420890000249 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 420890000250 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 420890000251 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 420890000252 GatB domain; Region: GatB_Yqey; smart00845 420890000253 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 420890000254 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 420890000255 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 420890000256 DNA-binding site [nucleotide binding]; DNA binding site 420890000257 RNA-binding motif; other site 420890000258 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 420890000259 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 420890000260 Rhomboid family; Region: Rhomboid; pfam01694 420890000261 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 420890000262 trimer interface [polypeptide binding]; other site 420890000263 active site 420890000264 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 420890000265 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 420890000266 active site 420890000267 metal binding site [ion binding]; metal-binding site 420890000268 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 420890000269 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4470 420890000270 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14455 420890000271 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 420890000272 FeS/SAM binding site; other site 420890000273 arginine deiminase; Provisional; Region: PRK01388 420890000274 ornithine carbamoyltransferase; Validated; Region: PRK02102 420890000275 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 420890000276 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 420890000277 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 420890000278 carbamate kinase; Reviewed; Region: PRK12686 420890000279 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 420890000280 putative substrate binding site [chemical binding]; other site 420890000281 nucleotide binding site [chemical binding]; other site 420890000282 nucleotide binding site [chemical binding]; other site 420890000283 homodimer interface [polypeptide binding]; other site 420890000284 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 420890000285 putative deacylase active site [active] 420890000286 transaminase; Validated; Region: PRK07324 420890000287 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 420890000288 pyridoxal 5'-phosphate binding site [chemical binding]; other site 420890000289 homodimer interface [polypeptide binding]; other site 420890000290 catalytic residue [active] 420890000291 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 420890000292 dimer interface [polypeptide binding]; other site 420890000293 FMN binding site [chemical binding]; other site 420890000294 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 420890000295 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 420890000296 substrate binding pocket [chemical binding]; other site 420890000297 chain length determination region; other site 420890000298 substrate-Mg2+ binding site; other site 420890000299 catalytic residues [active] 420890000300 aspartate-rich region 1; other site 420890000301 active site lid residues [active] 420890000302 aspartate-rich region 2; other site 420890000303 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 420890000304 UbiA prenyltransferase family; Region: UbiA; pfam01040 420890000305 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 420890000306 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 420890000307 G1 box; other site 420890000308 GTP/Mg2+ binding site [chemical binding]; other site 420890000309 Switch I region; other site 420890000310 G2 box; other site 420890000311 G3 box; other site 420890000312 Switch II region; other site 420890000313 G4 box; other site 420890000314 G5 box; other site 420890000315 Nucleoside recognition; Region: Gate; pfam07670 420890000316 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 420890000317 Nucleoside recognition; Region: Gate; pfam07670 420890000318 FeoA domain; Region: FeoA; cl00838 420890000319 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 420890000320 Predicted kinase related to dihydroxyacetone kinase [General function prediction only]; Region: COG1461 420890000321 DAK2 domain; Region: Dak2; pfam02734 420890000322 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 420890000323 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 420890000324 Protein of unknown function (DUF1129); Region: DUF1129; cl11555 420890000325 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 420890000326 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 420890000327 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cl08294 420890000328 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 420890000329 motif II; other site 420890000330 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 420890000331 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 420890000332 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 420890000333 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 420890000334 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 420890000335 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 420890000336 substrate binding site; other site 420890000337 tetramer interface; other site 420890000338 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 420890000339 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 420890000340 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 420890000341 NAD binding site [chemical binding]; other site 420890000342 substrate binding site [chemical binding]; other site 420890000343 homodimer interface [polypeptide binding]; other site 420890000344 active site 420890000345 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 420890000346 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 420890000347 NADP binding site [chemical binding]; other site 420890000348 active site 420890000349 putative substrate binding site [chemical binding]; other site 420890000350 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 420890000351 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 420890000352 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 420890000353 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 420890000354 Probable Catalytic site; other site 420890000355 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 420890000356 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 420890000357 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 420890000358 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 420890000359 Walker A/P-loop; other site 420890000360 ATP binding site [chemical binding]; other site 420890000361 Q-loop/lid; other site 420890000362 ABC transporter signature motif; other site 420890000363 Walker B; other site 420890000364 D-loop; other site 420890000365 H-loop/switch region; other site 420890000366 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 420890000367 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 420890000368 active site 420890000369 Lipopolysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: RgpF; COG3754 420890000370 Predicted membrane protein (DUF2142); Region: DUF2142; pfam09913 420890000371 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 420890000372 Ligand binding site; other site 420890000373 Putative Catalytic site; other site 420890000374 DXD motif; other site 420890000375 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 420890000376 active site 420890000377 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 420890000378 active site 420890000379 Protein of unknown function (DUF3184); Region: DUF3184; pfam11380 420890000380 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 420890000381 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 420890000382 active site 420890000383 beta-1,6-galactofuranosyltransferase; Provisional; Region: PRK09814 420890000384 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 420890000385 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 420890000386 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 420890000387 UDP-galactopyranose mutase; Region: GLF; pfam03275 420890000388 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 420890000389 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 420890000390 Predicted membrane protein (DUF2142); Region: DUF2142; pfam09913 420890000391 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cl10448 420890000392 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 420890000393 active site 420890000394 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 420890000395 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 420890000396 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 420890000397 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 420890000398 active site 420890000399 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 420890000400 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 420890000401 Walker A motif; other site 420890000402 ATP binding site [chemical binding]; other site 420890000403 Walker B motif; other site 420890000404 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 420890000405 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 420890000406 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 420890000407 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 420890000408 Type II secretory pathway pseudopilin; Region: PulG; pfam11773 420890000409 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 420890000410 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 420890000411 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 420890000412 metal binding site [ion binding]; metal-binding site 420890000413 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 420890000414 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 420890000415 active site 420890000416 Transglycosylase; Region: Transgly; pfam00912 420890000417 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 420890000418 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 420890000419 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 420890000420 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 420890000421 catalytic triad [active] 420890000422 catalytic triad [active] 420890000423 oxyanion hole [active] 420890000424 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 420890000425 Preprotein translocase subunit SecE [Intracellular trafficking and secretion]; Region: SecE; COG0690 420890000426 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 420890000427 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 420890000428 putative homodimer interface [polypeptide binding]; other site 420890000429 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 420890000430 heterodimer interface [polypeptide binding]; other site 420890000431 homodimer interface [polypeptide binding]; other site 420890000432 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 420890000433 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 420890000434 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 420890000435 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 420890000436 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 420890000437 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 420890000438 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 420890000439 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 420890000440 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 420890000441 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 420890000442 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 420890000443 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 420890000444 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 420890000445 putative translocon binding site; other site 420890000446 protein-rRNA interface [nucleotide binding]; other site 420890000447 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 420890000448 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 420890000449 G-X-X-G motif; other site 420890000450 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 420890000451 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 420890000452 23S rRNA interface [nucleotide binding]; other site 420890000453 5S rRNA interface [nucleotide binding]; other site 420890000454 putative antibiotic binding site [chemical binding]; other site 420890000455 L25 interface [polypeptide binding]; other site 420890000456 L27 interface [polypeptide binding]; other site 420890000457 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 420890000458 23S rRNA interface [nucleotide binding]; other site 420890000459 putative translocon interaction site; other site 420890000460 signal recognition particle (SRP54) interaction site; other site 420890000461 L23 interface [polypeptide binding]; other site 420890000462 trigger factor interaction site; other site 420890000463 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 420890000464 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 420890000465 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 420890000466 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 420890000467 RNA binding site [nucleotide binding]; other site 420890000468 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 420890000469 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 420890000470 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 420890000471 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 420890000472 Na/Pi-cotransporter; Region: NaPi_cotrn_rel; TIGR00704 420890000473 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 420890000474 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 420890000475 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 420890000476 tetramer (dimer of dimers) interface [polypeptide binding]; other site 420890000477 NAD binding site [chemical binding]; other site 420890000478 dimer interface [polypeptide binding]; other site 420890000479 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 420890000480 substrate binding site [chemical binding]; other site 420890000481 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 420890000482 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 420890000483 NADP binding site [chemical binding]; other site 420890000484 active site 420890000485 putative substrate binding site [chemical binding]; other site 420890000486 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 420890000487 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 420890000488 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 420890000489 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 420890000490 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 420890000491 5S rRNA interface [nucleotide binding]; other site 420890000492 L27 interface [polypeptide binding]; other site 420890000493 23S rRNA interface [nucleotide binding]; other site 420890000494 L5 interface [polypeptide binding]; other site 420890000495 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 420890000496 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 420890000497 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 420890000498 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 420890000499 23S rRNA binding site [nucleotide binding]; other site 420890000500 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 420890000501 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 420890000502 ligand binding site [chemical binding]; other site 420890000503 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 420890000504 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 420890000505 SecY translocase; Region: SecY; pfam00344 420890000506 adenylate kinase; Reviewed; Region: adk; PRK00279 420890000507 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 420890000508 AMP-binding site [chemical binding]; other site 420890000509 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 420890000510 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 420890000511 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 420890000512 ABC-ATPase subunit interface; other site 420890000513 dimer interface [polypeptide binding]; other site 420890000514 putative PBP binding regions; other site 420890000515 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 420890000516 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 420890000517 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 420890000518 MarR family; Region: MarR; pfam01047 420890000519 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 420890000520 rRNA binding site [nucleotide binding]; other site 420890000521 predicted 30S ribosome binding site; other site 420890000522 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 420890000523 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 420890000524 30S ribosomal protein S13; Region: bact_S13; TIGR03631 420890000525 30S ribosomal protein S11; Validated; Region: PRK05309 420890000526 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 420890000527 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 420890000528 alphaNTD homodimer interface [polypeptide binding]; other site 420890000529 alphaNTD - beta interaction site [polypeptide binding]; other site 420890000530 alphaNTD - beta' interaction site [polypeptide binding]; other site 420890000531 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 420890000532 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 420890000533 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 420890000534 Walker A motif; other site 420890000535 ATP binding site [chemical binding]; other site 420890000536 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 420890000537 Walker B motif; other site 420890000538 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 420890000539 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 420890000540 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 420890000541 putative active site [active] 420890000542 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 420890000543 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 420890000544 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 420890000545 hexamer interface [polypeptide binding]; other site 420890000546 ligand binding site [chemical binding]; other site 420890000547 putative active site [active] 420890000548 NAD(P) binding site [chemical binding]; other site 420890000549 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 420890000550 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 420890000551 Coenzyme A binding pocket [chemical binding]; other site 420890000552 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 420890000553 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 420890000554 active site 420890000555 HIGH motif; other site 420890000556 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 420890000557 active site 420890000558 KMSKS motif; other site 420890000559 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 420890000560 2-enoyl thioester reductase-like; Region: ETR_like; cd05282 420890000561 NADP binding site [chemical binding]; other site 420890000562 dimer interface [polypeptide binding]; other site 420890000563 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 420890000564 Cna protein B-type domain; Region: Cna_B; pfam05738 420890000565 Cna protein B-type domain; Region: Cna_B; pfam05738 420890000566 Cna protein B-type domain; Region: Cna_B; pfam05738 420890000567 x-prolyl-dipeptidyl aminopeptidase; Provisional; Region: PRK05371 420890000568 X-Prolyl dipeptidyl aminopeptidase PepX, N-terminal; Region: PepX_N; cl07696 420890000569 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 420890000570 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 420890000571 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 420890000572 ligand binding site [chemical binding]; other site 420890000573 flexible hinge region; other site 420890000574 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 420890000575 non-specific DNA interactions [nucleotide binding]; other site 420890000576 DNA binding site [nucleotide binding] 420890000577 sequence specific DNA binding site [nucleotide binding]; other site 420890000578 putative cAMP binding site [chemical binding]; other site 420890000579 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 420890000580 amphipathic channel; other site 420890000581 Asn-Pro-Ala signature motifs; other site 420890000582 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 420890000583 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 420890000584 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 420890000585 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 420890000586 Walker A/P-loop; other site 420890000587 ATP binding site [chemical binding]; other site 420890000588 Q-loop/lid; other site 420890000589 ABC transporter signature motif; other site 420890000590 Walker B; other site 420890000591 D-loop; other site 420890000592 H-loop/switch region; other site 420890000593 NIL domain; Region: NIL; pfam09383 420890000594 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 420890000595 dimer interface [polypeptide binding]; other site 420890000596 conserved gate region; other site 420890000597 ABC-ATPase subunit interface; other site 420890000598 dipeptidase PepV; Reviewed; Region: PRK07318 420890000599 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 420890000600 active site 420890000601 metal binding site [ion binding]; metal-binding site 420890000602 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 420890000603 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 420890000604 non-specific DNA binding site [nucleotide binding]; other site 420890000605 salt bridge; other site 420890000606 sequence-specific DNA binding site [nucleotide binding]; other site 420890000607 Transcriptional regulator [Transcription]; Region: LysR; COG0583 420890000608 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 420890000609 LysR substrate binding domain; Region: LysR_substrate; pfam03466 420890000610 dimerization interface [polypeptide binding]; other site 420890000611 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 420890000612 catalytic core [active] 420890000613 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 420890000614 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 420890000615 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 420890000616 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 420890000617 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 420890000618 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 420890000619 gating phenylalanine in ion channel; other site 420890000620 Transcriptional regulator [Transcription]; Region: LysR; COG0583 420890000621 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 420890000622 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 420890000623 dimerization interface [polypeptide binding]; other site 420890000624 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 420890000625 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 420890000626 recombination protein RecR; Reviewed; Region: recR; PRK00076 420890000627 RecR protein; Region: RecR; pfam02132 420890000628 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 420890000629 putative active site [active] 420890000630 putative metal-binding site [ion binding]; other site 420890000631 tetramer interface [polypeptide binding]; other site 420890000632 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 420890000633 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 420890000634 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 420890000635 Uncharacterized protein YrkD from Bacillus subtilis and related domains; this domain superfamily was previously known as part of DUF156; Region: BsYrkD-like_DUF156; cd10155 420890000636 putative homodimer interface [polypeptide binding]; other site 420890000637 putative homotetramer interface [polypeptide binding]; other site 420890000638 putative metal binding site [ion binding]; other site 420890000639 putative homodimer-homodimer interface [polypeptide binding]; other site 420890000640 putative allosteric switch controlling residues; other site 420890000641 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 420890000642 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 420890000643 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 420890000644 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 420890000645 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 420890000646 peptide binding site [polypeptide binding]; other site 420890000647 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 420890000648 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 420890000649 dimer interface [polypeptide binding]; other site 420890000650 conserved gate region; other site 420890000651 putative PBP binding loops; other site 420890000652 ABC-ATPase subunit interface; other site 420890000653 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 420890000654 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 420890000655 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 420890000656 dimer interface [polypeptide binding]; other site 420890000657 conserved gate region; other site 420890000658 putative PBP binding loops; other site 420890000659 ABC-ATPase subunit interface; other site 420890000660 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 420890000661 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 420890000662 Walker A/P-loop; other site 420890000663 ATP binding site [chemical binding]; other site 420890000664 Q-loop/lid; other site 420890000665 ABC transporter signature motif; other site 420890000666 Walker B; other site 420890000667 D-loop; other site 420890000668 H-loop/switch region; other site 420890000669 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 420890000670 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 420890000671 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 420890000672 Walker A/P-loop; other site 420890000673 ATP binding site [chemical binding]; other site 420890000674 Q-loop/lid; other site 420890000675 ABC transporter signature motif; other site 420890000676 Walker B; other site 420890000677 D-loop; other site 420890000678 H-loop/switch region; other site 420890000679 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 420890000680 Divergent PAP2 family; Region: DUF212; pfam02681 420890000681 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 420890000682 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 420890000683 G1 box; other site 420890000684 putative GEF interaction site [polypeptide binding]; other site 420890000685 GTP/Mg2+ binding site [chemical binding]; other site 420890000686 Switch I region; other site 420890000687 G2 box; other site 420890000688 G3 box; other site 420890000689 Switch II region; other site 420890000690 G4 box; other site 420890000691 G5 box; other site 420890000692 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 420890000693 Sulfatase; Region: Sulfatase; pfam00884 420890000694 helicase 45; Provisional; Region: PTZ00424 420890000695 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 420890000696 ATP binding site [chemical binding]; other site 420890000697 Mg++ binding site [ion binding]; other site 420890000698 motif III; other site 420890000699 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 420890000700 nucleotide binding region [chemical binding]; other site 420890000701 ATP-binding site [chemical binding]; other site 420890000702 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 420890000703 Catalytic site [active] 420890000704 Cna protein B-type domain; Region: Cna_B; pfam05738 420890000705 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 420890000706 domain interaction interfaces [polypeptide binding]; other site 420890000707 streptococcal pilin isopeptide linkage domain; Region: strep_pil_rpt; TIGR03786 420890000708 GTPase Era; Reviewed; Region: era; PRK00089 420890000709 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 420890000710 G1 box; other site 420890000711 GTP/Mg2+ binding site [chemical binding]; other site 420890000712 Switch I region; other site 420890000713 G2 box; other site 420890000714 Switch II region; other site 420890000715 G3 box; other site 420890000716 G4 box; other site 420890000717 G5 box; other site 420890000718 KH domain; Region: KH_2; pfam07650 420890000719 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 420890000720 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 420890000721 DNA binding site [nucleotide binding] 420890000722 catalytic residue [active] 420890000723 H2TH interface [polypeptide binding]; other site 420890000724 putative catalytic residues [active] 420890000725 turnover-facilitating residue; other site 420890000726 intercalation triad [nucleotide binding]; other site 420890000727 8OG recognition residue [nucleotide binding]; other site 420890000728 putative reading head residues; other site 420890000729 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 420890000730 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 420890000731 recombinase A; Provisional; Region: recA; PRK09354 420890000732 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 420890000733 hexamer interface [polypeptide binding]; other site 420890000734 Walker A motif; other site 420890000735 ATP binding site [chemical binding]; other site 420890000736 Walker B motif; other site 420890000737 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 420890000738 Protein of unknown function (DUF964); Region: DUF964; cl01483 420890000739 Uncharacterized protein conserved in bacteria (DUF2129); Region: DUF2129; pfam09902 420890000740 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 420890000741 putative active site [active] 420890000742 putative metal binding residues [ion binding]; other site 420890000743 signature motif; other site 420890000744 putative triphosphate binding site [ion binding]; other site 420890000745 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 420890000746 synthetase active site [active] 420890000747 NTP binding site [chemical binding]; other site 420890000748 metal binding site [ion binding]; metal-binding site 420890000749 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04885 420890000750 ATP-NAD kinase; Region: NAD_kinase; pfam01513 420890000751 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 420890000752 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 420890000753 active site 420890000754 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 420890000755 active site 420890000756 lysine transporter; Provisional; Region: PRK10836 420890000757 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 420890000758 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 420890000759 substrate binding pocket [chemical binding]; other site 420890000760 membrane-bound complex binding site; other site 420890000761 hinge residues; other site 420890000762 Predicted flavoprotein [General function prediction only]; Region: COG0431 420890000763 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 420890000764 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 420890000765 ApbE family; Region: ApbE; pfam02424 420890000766 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 420890000767 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 420890000768 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 420890000769 dimer interface [polypeptide binding]; other site 420890000770 putative anticodon binding site; other site 420890000771 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 420890000772 motif 1; other site 420890000773 active site 420890000774 motif 2; other site 420890000775 motif 3; other site 420890000776 Amino acid permease; Region: AA_permease_2; pfam13520 420890000777 Predicted membrane protein [Function unknown]; Region: COG2855 420890000778 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 420890000779 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 420890000780 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 420890000781 Ligand Binding Site [chemical binding]; other site 420890000782 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 420890000783 Major Facilitator Superfamily; Region: MFS_1; pfam07690 420890000784 putative substrate translocation pore; other site 420890000785 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 420890000786 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 420890000787 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 420890000788 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 420890000789 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 420890000790 active site 420890000791 HIGH motif; other site 420890000792 dimer interface [polypeptide binding]; other site 420890000793 KMSKS motif; other site 420890000794 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 420890000795 RNA binding surface [nucleotide binding]; other site 420890000796 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 420890000797 Transglycosylase; Region: Transgly; pfam00912 420890000798 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 420890000799 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 420890000800 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 420890000801 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 420890000802 DNA binding site [nucleotide binding] 420890000803 active site 420890000804 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 420890000805 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 420890000806 DNA binding site [nucleotide binding] 420890000807 active site 420890000808 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 420890000809 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 420890000810 active site 420890000811 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 420890000812 glutamyl aminopeptidase; Region: glu_aminopep; TIGR03107 420890000813 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 420890000814 catalytic residues [active] 420890000815 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 420890000816 putative tRNA-binding site [nucleotide binding]; other site 420890000817 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 420890000818 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 420890000819 dimer interface [polypeptide binding]; other site 420890000820 ssDNA binding site [nucleotide binding]; other site 420890000821 tetramer (dimer of dimers) interface [polypeptide binding]; other site 420890000822 Protein of unknown function (DUF1706); Region: DUF1706; pfam08020 420890000823 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 420890000824 oligomerisation interface [polypeptide binding]; other site 420890000825 mobile loop; other site 420890000826 roof hairpin; other site 420890000827 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 420890000828 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 420890000829 ring oligomerisation interface [polypeptide binding]; other site 420890000830 ATP/Mg binding site [chemical binding]; other site 420890000831 stacking interactions; other site 420890000832 hinge regions; other site 420890000833 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 420890000834 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 420890000835 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 420890000836 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 420890000837 dimer interface [polypeptide binding]; other site 420890000838 phosphorylation site [posttranslational modification] 420890000839 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 420890000840 ATP binding site [chemical binding]; other site 420890000841 Mg2+ binding site [ion binding]; other site 420890000842 G-X-G motif; other site 420890000843 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 420890000844 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 420890000845 active site 420890000846 phosphorylation site [posttranslational modification] 420890000847 intermolecular recognition site; other site 420890000848 dimerization interface [polypeptide binding]; other site 420890000849 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 420890000850 DNA binding site [nucleotide binding] 420890000851 thymidylate kinase; Validated; Region: tmk; PRK00698 420890000852 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 420890000853 TMP-binding site; other site 420890000854 ATP-binding site [chemical binding]; other site 420890000855 DNA polymerase III subunit delta'; Validated; Region: PRK07276 420890000856 DNA polymerase III subunit delta'; Validated; Region: PRK08485 420890000857 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 420890000858 Regulator of replication initiation timing [Replication, recombination, and repair]; Region: COG4467; cl01853 420890000859 Predicted methyltransferases [General function prediction only]; Region: COG0313 420890000860 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 420890000861 putative SAM binding site [chemical binding]; other site 420890000862 putative homodimer interface [polypeptide binding]; other site 420890000863 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 420890000864 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 420890000865 substrate binding pocket [chemical binding]; other site 420890000866 membrane-bound complex binding site; other site 420890000867 hinge residues; other site 420890000868 mevalonate kinase; Region: mevalon_kin; TIGR00549 420890000869 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 420890000870 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 420890000871 Ligand Binding Site [chemical binding]; other site 420890000872 Mevalonate pyrophosphate decarboxylase [Lipid metabolism]; Region: MVD1; COG3407 420890000873 diphosphomevalonate decarboxylase; Region: PLN02407 420890000874 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 420890000875 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 420890000876 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 420890000877 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 420890000878 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 420890000879 homotetramer interface [polypeptide binding]; other site 420890000880 FMN binding site [chemical binding]; other site 420890000881 homodimer contacts [polypeptide binding]; other site 420890000882 putative active site [active] 420890000883 putative substrate binding site [chemical binding]; other site 420890000884 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 420890000885 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 420890000886 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 420890000887 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 420890000888 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 420890000889 ATP binding site [chemical binding]; other site 420890000890 Mg++ binding site [ion binding]; other site 420890000891 motif III; other site 420890000892 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 420890000893 nucleotide binding region [chemical binding]; other site 420890000894 ATP-binding site [chemical binding]; other site 420890000895 Uncharacterized conserved protein [Function unknown]; Region: COG1434 420890000896 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 420890000897 putative active site [active] 420890000898 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 420890000899 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 420890000900 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 420890000901 putative active site [active] 420890000902 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 420890000903 active site 420890000904 P-loop; other site 420890000905 phosphorylation site [posttranslational modification] 420890000906 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 420890000907 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 420890000908 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 420890000909 beta-galactosidase; Region: BGL; TIGR03356 420890000910 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 420890000911 beta-galactosidase; Region: BGL; TIGR03356 420890000912 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 420890000913 active site 420890000914 P-loop; other site 420890000915 phosphorylation site [posttranslational modification] 420890000916 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 420890000917 active site 420890000918 methionine cluster; other site 420890000919 phosphorylation site [posttranslational modification] 420890000920 metal binding site [ion binding]; metal-binding site 420890000921 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 420890000922 catalytic residue [active] 420890000923 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 420890000924 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 420890000925 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 420890000926 Walker A/P-loop; other site 420890000927 ATP binding site [chemical binding]; other site 420890000928 Q-loop/lid; other site 420890000929 ABC transporter signature motif; other site 420890000930 Walker B; other site 420890000931 D-loop; other site 420890000932 H-loop/switch region; other site 420890000933 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 420890000934 Transglycosylase; Region: Transgly; pfam00912 420890000935 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 420890000936 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 420890000937 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 420890000938 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 420890000939 nucleotide binding pocket [chemical binding]; other site 420890000940 K-X-D-G motif; other site 420890000941 catalytic site [active] 420890000942 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 420890000943 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 420890000944 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 420890000945 Dimer interface [polypeptide binding]; other site 420890000946 BRCT sequence motif; other site 420890000947 putative lipid kinase; Reviewed; Region: PRK13055 420890000948 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 420890000949 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 420890000950 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 420890000951 Walker A/P-loop; other site 420890000952 ATP binding site [chemical binding]; other site 420890000953 Q-loop/lid; other site 420890000954 ABC transporter signature motif; other site 420890000955 Walker B; other site 420890000956 D-loop; other site 420890000957 H-loop/switch region; other site 420890000958 TOBE domain; Region: TOBE_2; pfam08402 420890000959 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 420890000960 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 420890000961 dimer interface [polypeptide binding]; other site 420890000962 PYR/PP interface [polypeptide binding]; other site 420890000963 TPP binding site [chemical binding]; other site 420890000964 substrate binding site [chemical binding]; other site 420890000965 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 420890000966 Domain of unknown function; Region: EKR; cl11037 420890000967 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 420890000968 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 420890000969 TPP-binding site [chemical binding]; other site 420890000970 Uncharacterized conserved protein [Function unknown]; Region: COG1624 420890000971 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 420890000972 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 420890000973 YbbR-like protein; Region: YbbR; pfam07949 420890000974 YbbR-like protein; Region: YbbR; pfam07949 420890000975 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 420890000976 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 420890000977 active site 420890000978 substrate binding site [chemical binding]; other site 420890000979 metal binding site [ion binding]; metal-binding site 420890000980 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 420890000981 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 420890000982 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 420890000983 Coenzyme A binding pocket [chemical binding]; other site 420890000984 Transcriptional regulator [Transcription]; Region: LytR; COG1316 420890000985 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 420890000986 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 420890000987 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 420890000988 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 420890000989 non-specific DNA binding site [nucleotide binding]; other site 420890000990 salt bridge; other site 420890000991 sequence-specific DNA binding site [nucleotide binding]; other site 420890000992 Lactococcus bacteriophage repressor; Region: Lac_bphage_repr; pfam06543 420890000993 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 420890000994 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 420890000995 dimerization interface 3.5A [polypeptide binding]; other site 420890000996 active site 420890000997 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 420890000998 dimer interface [polypeptide binding]; other site 420890000999 pyridoxal binding site [chemical binding]; other site 420890001000 ATP binding site [chemical binding]; other site 420890001001 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 420890001002 hypothetical protein; Provisional; Region: PRK13690 420890001003 CTP synthetase; Validated; Region: pyrG; PRK05380 420890001004 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 420890001005 Catalytic site [active] 420890001006 active site 420890001007 UTP binding site [chemical binding]; other site 420890001008 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 420890001009 active site 420890001010 putative oxyanion hole; other site 420890001011 catalytic triad [active] 420890001012 maltose O-acetyltransferase; Provisional; Region: PRK10092 420890001013 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 420890001014 active site 420890001015 substrate binding site [chemical binding]; other site 420890001016 trimer interface [polypeptide binding]; other site 420890001017 CoA binding site [chemical binding]; other site 420890001018 Protein of unknown function (DUF2929); Region: DUF2929; pfam11151 420890001019 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK07279 420890001020 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 420890001021 active site 420890001022 PHP Thumb interface [polypeptide binding]; other site 420890001023 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 420890001024 generic binding surface II; other site 420890001025 generic binding surface I; other site 420890001026 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 420890001027 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 420890001028 EDD domain protein, DegV family; Region: DegV; TIGR00762 420890001029 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 420890001030 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 420890001031 active site 420890001032 catalytic triad [active] 420890001033 oxyanion hole [active] 420890001034 Uncharacterized protein conserved in bacteria (DUF2140); Region: DUF2140; pfam09911 420890001035 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 420890001036 IHF dimer interface [polypeptide binding]; other site 420890001037 IHF - DNA interface [nucleotide binding]; other site 420890001038 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 420890001039 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 420890001040 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 420890001041 catalytic residue [active] 420890001042 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 420890001043 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 420890001044 dimer interface [polypeptide binding]; other site 420890001045 pyridoxal 5'-phosphate binding site [chemical binding]; other site 420890001046 catalytic residue [active] 420890001047 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 420890001048 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 420890001049 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 420890001050 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 420890001051 Transglycosylase; Region: Transgly; pfam00912 420890001052 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 420890001053 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 420890001054 Holliday junction-specific endonuclease; Reviewed; Region: recU; PRK02234 420890001055 hypothetical protein; Provisional; Region: PRK13660 420890001056 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 420890001057 ArsC family; Region: ArsC; pfam03960 420890001058 putative catalytic residues [active] 420890001059 thiol/disulfide switch; other site 420890001060 hypothetical protein; Provisional; Region: PRK04387 420890001061 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 420890001062 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 420890001063 active site 420890001064 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 420890001065 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 420890001066 hinge; other site 420890001067 active site 420890001068 trigger factor; Provisional; Region: tig; PRK01490 420890001069 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 420890001070 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 420890001071 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 420890001072 dimerization interface [polypeptide binding]; other site 420890001073 putative DNA binding site [nucleotide binding]; other site 420890001074 putative Zn2+ binding site [ion binding]; other site 420890001075 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 420890001076 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 420890001077 potential catalytic triad [active] 420890001078 conserved cys residue [active] 420890001079 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 420890001080 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 420890001081 NAD(P) binding site [chemical binding]; other site 420890001082 active site 420890001083 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 420890001084 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 420890001085 motif II; other site 420890001086 ribonuclease Z; Region: RNase_Z; TIGR02651 420890001087 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 420890001088 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 420890001089 NAD(P) binding site [chemical binding]; other site 420890001090 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 420890001091 NAD(P) binding site [chemical binding]; other site 420890001092 active site 420890001093 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 420890001094 DHH family; Region: DHH; pfam01368 420890001095 DHHA1 domain; Region: DHHA1; pfam02272 420890001096 Single-strand DNA-specific exonuclease, C terminal domain; Region: ssDNA-exonuc_C; cl11538 420890001097 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 420890001098 active site 420890001099 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; pfam05066 420890001100 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 420890001101 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 420890001102 dimerization interface [polypeptide binding]; other site 420890001103 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 420890001104 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 420890001105 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 420890001106 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; cl01850 420890001107 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 420890001108 Clp amino terminal domain; Region: Clp_N; pfam02861 420890001109 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 420890001110 Walker A motif; other site 420890001111 ATP binding site [chemical binding]; other site 420890001112 Walker B motif; other site 420890001113 arginine finger; other site 420890001114 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 420890001115 Walker A motif; other site 420890001116 ATP binding site [chemical binding]; other site 420890001117 Walker B motif; other site 420890001118 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 420890001119 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 420890001120 30S subunit binding site; other site 420890001121 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 420890001122 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 420890001123 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 420890001124 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 420890001125 CoA-binding site [chemical binding]; other site 420890001126 ATP-binding [chemical binding]; other site 420890001127 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 420890001128 drug efflux system protein MdtG; Provisional; Region: PRK09874 420890001129 putative substrate translocation pore; other site 420890001130 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 420890001131 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 420890001132 pyruvate carboxylase; Reviewed; Region: PRK12999 420890001133 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 420890001134 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 420890001135 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 420890001136 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 420890001137 active site 420890001138 catalytic residues [active] 420890001139 metal binding site [ion binding]; metal-binding site 420890001140 homodimer binding site [polypeptide binding]; other site 420890001141 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 420890001142 carboxyltransferase (CT) interaction site; other site 420890001143 biotinylation site [posttranslational modification]; other site 420890001144 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 420890001145 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 420890001146 oligomer interface [polypeptide binding]; other site 420890001147 active site residues [active] 420890001148 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_3; cd07241 420890001149 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 420890001150 putative metal binding site [ion binding]; other site 420890001151 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 420890001152 ArsC family; Region: ArsC; pfam03960 420890001153 putative catalytic residues [active] 420890001154 thiol/disulfide switch; other site 420890001155 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 420890001156 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 420890001157 active site 420890001158 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 420890001159 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 420890001160 putative active site [active] 420890001161 putative metal binding site [ion binding]; other site 420890001162 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 420890001163 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 420890001164 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 420890001165 Walker A/P-loop; other site 420890001166 ATP binding site [chemical binding]; other site 420890001167 Q-loop/lid; other site 420890001168 ABC transporter signature motif; other site 420890001169 Walker B; other site 420890001170 D-loop; other site 420890001171 H-loop/switch region; other site 420890001172 inner membrane transport permease; Provisional; Region: PRK15066 420890001173 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 420890001174 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 420890001175 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 420890001176 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 420890001177 S-adenosylmethionine binding site [chemical binding]; other site 420890001178 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 420890001179 putative uracil binding site [chemical binding]; other site 420890001180 putative active site [active] 420890001181 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 420890001182 Coenzyme A binding pocket [chemical binding]; other site 420890001183 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 420890001184 Domain of unknown function DUF20; Region: UPF0118; pfam01594 420890001185 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 420890001186 Domain of unknown function DUF21; Region: DUF21; pfam01595 420890001187 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 420890001188 Transporter associated domain; Region: CorC_HlyC; smart01091 420890001189 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 420890001190 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 420890001191 putative substrate translocation pore; other site 420890001192 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 420890001193 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 420890001194 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 420890001195 FeS/SAM binding site; other site 420890001196 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 420890001197 DHH family; Region: DHH; pfam01368 420890001198 DHHA2 domain; Region: DHHA2; pfam02833 420890001199 Domain of unknown function (DUF1803); Region: DUF1803; pfam08820 420890001200 Domain of unknown function (DUF1803); Region: DUF1803; pfam08820 420890001201 peptidase T; Region: peptidase-T; TIGR01882 420890001202 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 420890001203 metal binding site [ion binding]; metal-binding site 420890001204 dimer interface [polypeptide binding]; other site 420890001205 inner membrane transporter YjeM; Provisional; Region: PRK15238 420890001206 UDP-N-acetylmuramoylalanyl-D-glutamate--L-lysine ligase; Provisional; Region: PRK14022 420890001207 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 420890001208 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 420890001209 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 420890001210 Helix-turn-helix domain; Region: HTH_19; pfam12844 420890001211 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 420890001212 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 420890001213 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 420890001214 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 420890001215 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 420890001216 active site 420890001217 Zn binding site [ion binding]; other site 420890001218 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 420890001219 active site 420890001220 DNA binding site [nucleotide binding] 420890001221 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 420890001222 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 420890001223 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 420890001224 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 420890001225 RPB1 interaction site [polypeptide binding]; other site 420890001226 RPB10 interaction site [polypeptide binding]; other site 420890001227 RPB11 interaction site [polypeptide binding]; other site 420890001228 RPB3 interaction site [polypeptide binding]; other site 420890001229 RPB12 interaction site [polypeptide binding]; other site 420890001230 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 420890001231 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 420890001232 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 420890001233 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 420890001234 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 420890001235 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 420890001236 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 420890001237 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 420890001238 G-loop; other site 420890001239 DNA binding site [nucleotide binding] 420890001240 lipid kinase, YegS/Rv2252/BmrU family; Region: TIGR00147 420890001241 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 420890001242 Negative regulator of genetic competence (MecA); Region: MecA; cl02022 420890001243 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 420890001244 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 420890001245 Mg++ binding site [ion binding]; other site 420890001246 putative catalytic motif [active] 420890001247 substrate binding site [chemical binding]; other site 420890001248 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 420890001249 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 420890001250 Walker A/P-loop; other site 420890001251 ATP binding site [chemical binding]; other site 420890001252 Q-loop/lid; other site 420890001253 ABC transporter signature motif; other site 420890001254 Walker B; other site 420890001255 D-loop; other site 420890001256 H-loop/switch region; other site 420890001257 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 420890001258 FeS assembly protein SufD; Region: sufD; TIGR01981 420890001259 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 420890001260 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 420890001261 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 420890001262 catalytic residue [active] 420890001263 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 420890001264 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 420890001265 trimerization site [polypeptide binding]; other site 420890001266 active site 420890001267 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 420890001268 FeS assembly protein SufB; Region: sufB; TIGR01980 420890001269 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 420890001270 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 420890001271 Walker A/P-loop; other site 420890001272 ATP binding site [chemical binding]; other site 420890001273 Q-loop/lid; other site 420890001274 ABC transporter signature motif; other site 420890001275 Walker B; other site 420890001276 D-loop; other site 420890001277 H-loop/switch region; other site 420890001278 ABC transporter; Region: ABC_tran_2; pfam12848 420890001279 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 420890001280 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 420890001281 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 420890001282 transmembrane helices; other site 420890001283 SLBB domain; Region: SLBB; pfam10531 420890001284 comEA protein; Region: comE; TIGR01259 420890001285 Helix-hairpin-helix motif; Region: HHH; pfam00633 420890001286 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 420890001287 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 420890001288 Competence protein; Region: Competence; pfam03772 420890001289 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 420890001290 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 420890001291 Predicted esterase [General function prediction only]; Region: COG0627 420890001292 S-formylglutathione hydrolase; Region: PLN02442 420890001293 F0F1 ATP synthase subunit C; Provisional; Region: PRK13466 420890001294 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 420890001295 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 420890001296 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 420890001297 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 420890001298 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 420890001299 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 420890001300 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 420890001301 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 420890001302 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 420890001303 beta subunit interaction interface [polypeptide binding]; other site 420890001304 Walker A motif; other site 420890001305 ATP binding site [chemical binding]; other site 420890001306 Walker B motif; other site 420890001307 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 420890001308 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 420890001309 core domain interface [polypeptide binding]; other site 420890001310 delta subunit interface [polypeptide binding]; other site 420890001311 epsilon subunit interface [polypeptide binding]; other site 420890001312 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 420890001313 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 420890001314 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 420890001315 alpha subunit interaction interface [polypeptide binding]; other site 420890001316 Walker A motif; other site 420890001317 ATP binding site [chemical binding]; other site 420890001318 Walker B motif; other site 420890001319 inhibitor binding site; inhibition site 420890001320 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 420890001321 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 420890001322 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 420890001323 gamma subunit interface [polypeptide binding]; other site 420890001324 epsilon subunit interface [polypeptide binding]; other site 420890001325 LBP interface [polypeptide binding]; other site 420890001326 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 420890001327 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 420890001328 NAD(P) binding site [chemical binding]; other site 420890001329 LDH/MDH dimer interface [polypeptide binding]; other site 420890001330 substrate binding site [chemical binding]; other site 420890001331 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 420890001332 catalytic core [active] 420890001333 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 420890001334 Transcriptional regulator of heat shock gene [Transcription]; Region: HrcA; COG1420 420890001335 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 420890001336 GrpE; Region: GrpE; pfam01025 420890001337 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 420890001338 dimer interface [polypeptide binding]; other site 420890001339 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 420890001340 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 420890001341 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 420890001342 nucleotide binding site [chemical binding]; other site 420890001343 NEF interaction site [polypeptide binding]; other site 420890001344 SBD interface [polypeptide binding]; other site 420890001345 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 420890001346 ArsC family; Region: ArsC; pfam03960 420890001347 putative catalytic residues [active] 420890001348 thiol/disulfide switch; other site 420890001349 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 420890001350 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 420890001351 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 420890001352 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 420890001353 putative substrate binding site [chemical binding]; other site 420890001354 putative ATP binding site [chemical binding]; other site 420890001355 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 420890001356 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 420890001357 active site 420890001358 phosphorylation site [posttranslational modification] 420890001359 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 420890001360 active site 420890001361 P-loop; other site 420890001362 phosphorylation site [posttranslational modification] 420890001363 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 420890001364 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 420890001365 Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]; Region: COG1399 420890001366 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 420890001367 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 420890001368 active site 420890001369 phosphorylation site [posttranslational modification] 420890001370 intermolecular recognition site; other site 420890001371 dimerization interface [polypeptide binding]; other site 420890001372 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 420890001373 DNA binding site [nucleotide binding] 420890001374 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 420890001375 HAMP domain; Region: HAMP; pfam00672 420890001376 dimerization interface [polypeptide binding]; other site 420890001377 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 420890001378 dimer interface [polypeptide binding]; other site 420890001379 phosphorylation site [posttranslational modification] 420890001380 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 420890001381 ATP binding site [chemical binding]; other site 420890001382 Mg2+ binding site [ion binding]; other site 420890001383 G-X-G motif; other site 420890001384 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 420890001385 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 420890001386 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 420890001387 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 420890001388 non-specific DNA binding site [nucleotide binding]; other site 420890001389 salt bridge; other site 420890001390 sequence-specific DNA binding site [nucleotide binding]; other site 420890001391 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 420890001392 active site 420890001393 oxyanion hole [active] 420890001394 catalytic triad [active] 420890001395 polysaccharide export protein, MPA1 family, Gram-positive type; Region: polys_exp_MPA1; TIGR01006 420890001396 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 420890001397 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 420890001398 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 420890001399 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 420890001400 Bacterial sugar transferase; Region: Bac_transf; pfam02397 420890001401 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 420890001402 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 420890001403 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 420890001404 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 420890001405 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 420890001406 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 420890001407 trimer interface [polypeptide binding]; other site 420890001408 active site 420890001409 substrate binding site [chemical binding]; other site 420890001410 CoA binding site [chemical binding]; other site 420890001411 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 420890001412 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 420890001413 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 420890001414 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 420890001415 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 420890001416 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 420890001417 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 420890001418 Exopolysaccharide biosynthesis protein related to N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: EpsL; COG4632 420890001419 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 420890001420 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 420890001421 Transposase; Region: HTH_Tnp_1; cl17663 420890001422 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 420890001423 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 420890001424 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 420890001425 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 420890001426 substrate binding pocket [chemical binding]; other site 420890001427 membrane-bound complex binding site; other site 420890001428 hinge residues; other site 420890001429 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 420890001430 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 420890001431 dimer interface [polypeptide binding]; other site 420890001432 conserved gate region; other site 420890001433 putative PBP binding loops; other site 420890001434 ABC-ATPase subunit interface; other site 420890001435 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 420890001436 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 420890001437 Walker A/P-loop; other site 420890001438 ATP binding site [chemical binding]; other site 420890001439 Q-loop/lid; other site 420890001440 ABC transporter signature motif; other site 420890001441 Walker B; other site 420890001442 D-loop; other site 420890001443 H-loop/switch region; other site 420890001444 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 420890001445 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 420890001446 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 420890001447 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 420890001448 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 420890001449 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 420890001450 active site 420890001451 homodimer interface [polypeptide binding]; other site 420890001452 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 420890001453 Cell division protein FtsQ; Region: FtsQ; pfam03799 420890001454 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 420890001455 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 420890001456 Walker A/P-loop; other site 420890001457 ATP binding site [chemical binding]; other site 420890001458 Q-loop/lid; other site 420890001459 ABC transporter signature motif; other site 420890001460 Walker B; other site 420890001461 D-loop; other site 420890001462 H-loop/switch region; other site 420890001463 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 420890001464 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 420890001465 substrate binding pocket [chemical binding]; other site 420890001466 membrane-bound complex binding site; other site 420890001467 hinge residues; other site 420890001468 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 420890001469 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 420890001470 substrate binding pocket [chemical binding]; other site 420890001471 membrane-bound complex binding site; other site 420890001472 hinge residues; other site 420890001473 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 420890001474 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 420890001475 dimer interface [polypeptide binding]; other site 420890001476 conserved gate region; other site 420890001477 putative PBP binding loops; other site 420890001478 ABC-ATPase subunit interface; other site 420890001479 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 420890001480 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 420890001481 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 420890001482 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 420890001483 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 420890001484 shikimate binding site; other site 420890001485 NAD(P) binding site [chemical binding]; other site 420890001486 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 420890001487 active site 420890001488 dimer interface [polypeptide binding]; other site 420890001489 metal binding site [ion binding]; metal-binding site 420890001490 Protein of unknown function (DUF1697); Region: DUF1697; cl01557 420890001491 Protein of unknown function, DUF606; Region: DUF606; pfam04657 420890001492 Protein of unknown function, DUF606; Region: DUF606; pfam04657 420890001493 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4493 420890001494 Protein of unknown function (DUF1054); Region: DUF1054; pfam06335 420890001495 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 420890001496 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 420890001497 Tetramer interface [polypeptide binding]; other site 420890001498 active site 420890001499 FMN-binding site [chemical binding]; other site 420890001500 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5294 420890001501 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 420890001502 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 420890001503 Walker A/P-loop; other site 420890001504 ATP binding site [chemical binding]; other site 420890001505 Q-loop/lid; other site 420890001506 ABC transporter signature motif; other site 420890001507 Walker B; other site 420890001508 D-loop; other site 420890001509 H-loop/switch region; other site 420890001510 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 420890001511 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 420890001512 active site 420890001513 phosphorylation site [posttranslational modification] 420890001514 intermolecular recognition site; other site 420890001515 dimerization interface [polypeptide binding]; other site 420890001516 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 420890001517 DNA binding site [nucleotide binding] 420890001518 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 420890001519 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 420890001520 ATP binding site [chemical binding]; other site 420890001521 Mg2+ binding site [ion binding]; other site 420890001522 G-X-G motif; other site 420890001523 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 420890001524 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 420890001525 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 420890001526 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 420890001527 hinge; other site 420890001528 active site 420890001529 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 420890001530 shikimate kinase; Reviewed; Region: aroK; PRK00131 420890001531 ADP binding site [chemical binding]; other site 420890001532 magnesium binding site [ion binding]; other site 420890001533 putative shikimate binding site; other site 420890001534 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 420890001535 catalytic core [active] 420890001536 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 420890001537 AAA domain; Region: AAA_30; pfam13604 420890001538 Family description; Region: UvrD_C_2; pfam13538 420890001539 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 420890001540 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 420890001541 Zn2+ binding site [ion binding]; other site 420890001542 Mg2+ binding site [ion binding]; other site 420890001543 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 420890001544 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 420890001545 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 420890001546 ligand binding site [chemical binding]; other site 420890001547 active site 420890001548 UGI interface [polypeptide binding]; other site 420890001549 catalytic site [active] 420890001550 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 420890001551 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 420890001552 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 420890001553 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 420890001554 active site 420890001555 motif I; other site 420890001556 motif II; other site 420890001557 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 420890001558 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 420890001559 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 420890001560 putative active site [active] 420890001561 Competence protein CoiA-like family; Region: CoiA; cl11541 420890001562 Oligoendopeptidase F [Amino acid transport and metabolism]; Region: COG1164 420890001563 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 420890001564 active site 420890001565 Zn binding site [ion binding]; other site 420890001566 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 420890001567 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 420890001568 S-adenosylmethionine binding site [chemical binding]; other site 420890001569 foldase protein PrsA; Reviewed; Region: prsA; PRK01326 420890001570 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 420890001571 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 420890001572 motif 1; other site 420890001573 active site 420890001574 motif 2; other site 420890001575 motif 3; other site 420890001576 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 420890001577 DHHA1 domain; Region: DHHA1; pfam02272 420890001578 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 420890001579 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 420890001580 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 420890001581 putative active site [active] 420890001582 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 420890001583 catalytic core [active] 420890001584 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 420890001585 beta-galactosidase; Region: BGL; TIGR03356 420890001586 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 420890001587 SmpB-tmRNA interface; other site 420890001588 PBP superfamily domain; Region: PBP_like_2; cl17296 420890001589 PBP superfamily domain; Region: PBP_like_2; cl17296 420890001590 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 420890001591 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 420890001592 dimer interface [polypeptide binding]; other site 420890001593 conserved gate region; other site 420890001594 putative PBP binding loops; other site 420890001595 ABC-ATPase subunit interface; other site 420890001596 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 420890001597 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 420890001598 dimer interface [polypeptide binding]; other site 420890001599 conserved gate region; other site 420890001600 putative PBP binding loops; other site 420890001601 ABC-ATPase subunit interface; other site 420890001602 phosphate transporter ATP-binding protein; Provisional; Region: PRK14237 420890001603 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 420890001604 Walker A/P-loop; other site 420890001605 ATP binding site [chemical binding]; other site 420890001606 Q-loop/lid; other site 420890001607 ABC transporter signature motif; other site 420890001608 Walker B; other site 420890001609 D-loop; other site 420890001610 H-loop/switch region; other site 420890001611 phosphate transporter ATP-binding protein; Provisional; Region: PRK14239 420890001612 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 420890001613 Walker A/P-loop; other site 420890001614 ATP binding site [chemical binding]; other site 420890001615 Q-loop/lid; other site 420890001616 ABC transporter signature motif; other site 420890001617 Walker B; other site 420890001618 D-loop; other site 420890001619 H-loop/switch region; other site 420890001620 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 420890001621 PhoU domain; Region: PhoU; pfam01895 420890001622 PhoU domain; Region: PhoU; pfam01895 420890001623 seryl-tRNA synthetase; Provisional; Region: PRK05431 420890001624 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 420890001625 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 420890001626 dimer interface [polypeptide binding]; other site 420890001627 active site 420890001628 motif 1; other site 420890001629 motif 2; other site 420890001630 motif 3; other site 420890001631 Uncharacterized conserved protein [Function unknown]; Region: COG1284 420890001632 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 420890001633 Domain of unknown function (DUF956); Region: DUF956; cl01917 420890001634 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 420890001635 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 420890001636 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 420890001637 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 420890001638 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 420890001639 active pocket/dimerization site; other site 420890001640 active site 420890001641 phosphorylation site [posttranslational modification] 420890001642 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 420890001643 active site 420890001644 phosphorylation site [posttranslational modification] 420890001645 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 420890001646 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 420890001647 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 420890001648 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 420890001649 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 420890001650 cytidylate kinase; Provisional; Region: cmk; PRK00023 420890001651 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 420890001652 CMP-binding site; other site 420890001653 The sites determining sugar specificity; other site 420890001654 Predicted acetyltransferase [General function prediction only]; Region: COG3153 420890001655 Glycopeptide antibiotics resistance protein [Defense mechanisms]; Region: VanZ; COG4767 420890001656 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 420890001657 Transcriptional regulator [Transcription]; Region: LytR; COG1316 420890001658 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 420890001659 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 420890001660 dimer interface [polypeptide binding]; other site 420890001661 conserved gate region; other site 420890001662 putative PBP binding loops; other site 420890001663 ABC-ATPase subunit interface; other site 420890001664 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 420890001665 dimer interface [polypeptide binding]; other site 420890001666 conserved gate region; other site 420890001667 ABC-ATPase subunit interface; other site 420890001668 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 420890001669 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 420890001670 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 420890001671 homodimer interface [polypeptide binding]; other site 420890001672 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 420890001673 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 420890001674 active site 420890001675 homodimer interface [polypeptide binding]; other site 420890001676 catalytic site [active] 420890001677 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 420890001678 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 420890001679 Ca binding site [ion binding]; other site 420890001680 active site 420890001681 catalytic site [active] 420890001682 maltose phosphorylase; Provisional; Region: PRK13807 420890001683 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 420890001684 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 420890001685 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 420890001686 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 420890001687 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 420890001688 motif II; other site 420890001689 Transcriptional regulators [Transcription]; Region: PurR; COG1609 420890001690 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 420890001691 DNA binding site [nucleotide binding] 420890001692 domain linker motif; other site 420890001693 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 420890001694 putative dimerization interface [polypeptide binding]; other site 420890001695 putative ligand binding site [chemical binding]; other site 420890001696 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 420890001697 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 420890001698 active site 420890001699 phosphorylation site [posttranslational modification] 420890001700 intermolecular recognition site; other site 420890001701 dimerization interface [polypeptide binding]; other site 420890001702 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 420890001703 DNA binding site [nucleotide binding] 420890001704 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 420890001705 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 420890001706 dimer interface [polypeptide binding]; other site 420890001707 phosphorylation site [posttranslational modification] 420890001708 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 420890001709 ATP binding site [chemical binding]; other site 420890001710 Mg2+ binding site [ion binding]; other site 420890001711 G-X-G motif; other site 420890001712 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK12315 420890001713 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 420890001714 TPP-binding site; other site 420890001715 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 420890001716 PYR/PP interface [polypeptide binding]; other site 420890001717 dimer interface [polypeptide binding]; other site 420890001718 TPP binding site [chemical binding]; other site 420890001719 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 420890001720 Uncharacterized conserved protein [Function unknown]; Region: COG0759 420890001721 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 420890001722 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 420890001723 Walker A/P-loop; other site 420890001724 ATP binding site [chemical binding]; other site 420890001725 Q-loop/lid; other site 420890001726 ABC transporter signature motif; other site 420890001727 Walker B; other site 420890001728 D-loop; other site 420890001729 H-loop/switch region; other site 420890001730 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 420890001731 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 420890001732 dimer interface [polypeptide binding]; other site 420890001733 putative PBP binding regions; other site 420890001734 ABC-ATPase subunit interface; other site 420890001735 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 420890001736 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 420890001737 ABC-ATPase subunit interface; other site 420890001738 dimer interface [polypeptide binding]; other site 420890001739 putative PBP binding regions; other site 420890001740 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 420890001741 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 420890001742 putative ligand binding residues [chemical binding]; other site 420890001743 MarR family; Region: MarR; pfam01047 420890001744 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 420890001745 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 420890001746 dimer interface [polypeptide binding]; other site 420890001747 active site 420890001748 CoA binding pocket [chemical binding]; other site 420890001749 acyl carrier protein; Provisional; Region: acpP; PRK00982 420890001750 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 420890001751 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 420890001752 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 420890001753 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 420890001754 NAD(P) binding site [chemical binding]; other site 420890001755 homotetramer interface [polypeptide binding]; other site 420890001756 homodimer interface [polypeptide binding]; other site 420890001757 active site 420890001758 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 420890001759 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 420890001760 dimer interface [polypeptide binding]; other site 420890001761 active site 420890001762 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 420890001763 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 420890001764 carboxyltransferase (CT) interaction site; other site 420890001765 biotinylation site [posttranslational modification]; other site 420890001766 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 420890001767 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 420890001768 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 420890001769 ATP-grasp domain; Region: ATP-grasp_4; cl17255 420890001770 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 420890001771 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 420890001772 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 420890001773 Ligand binding site; other site 420890001774 Putative Catalytic site; other site 420890001775 DXD motif; other site 420890001776 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 420890001777 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 420890001778 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 420890001779 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 420890001780 Predicted membrane protein [Function unknown]; Region: COG2261 420890001781 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 420890001782 ArsC family; Region: ArsC; pfam03960 420890001783 putative ArsC-like catalytic residues; other site 420890001784 putative TRX-like catalytic residues [active] 420890001785 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 420890001786 active site 420890001787 putative catalytic site [active] 420890001788 DNA binding site [nucleotide binding] 420890001789 putative phosphate binding site [ion binding]; other site 420890001790 metal binding site A [ion binding]; metal-binding site 420890001791 AP binding site [nucleotide binding]; other site 420890001792 metal binding site B [ion binding]; metal-binding site 420890001793 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 420890001794 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 420890001795 active site 420890001796 HIGH motif; other site 420890001797 KMSKS motif; other site 420890001798 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 420890001799 tRNA binding surface [nucleotide binding]; other site 420890001800 anticodon binding site; other site 420890001801 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 420890001802 dimer interface [polypeptide binding]; other site 420890001803 putative tRNA-binding site [nucleotide binding]; other site 420890001804 short chain dehydrogenase; Validated; Region: PRK06182 420890001805 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 420890001806 NADP binding site [chemical binding]; other site 420890001807 active site 420890001808 steroid binding site; other site 420890001809 Protein of unknown function (DUF2829); Region: DUF2829; pfam11195 420890001810 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK06550 420890001811 classical (c) SDRs; Region: SDR_c; cd05233 420890001812 NAD(P) binding site [chemical binding]; other site 420890001813 active site 420890001814 Predicted membrane protein [Function unknown]; Region: COG4708 420890001815 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 420890001816 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 420890001817 active site 420890001818 motif I; other site 420890001819 motif II; other site 420890001820 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 420890001821 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 420890001822 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 420890001823 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 420890001824 Ligand Binding Site [chemical binding]; other site 420890001825 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 420890001826 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 420890001827 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 420890001828 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 420890001829 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 420890001830 cell division protein GpsB; Provisional; Region: PRK14127 420890001831 DivIVA domain; Region: DivI1A_domain; TIGR03544 420890001832 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 420890001833 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 420890001834 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 420890001835 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 420890001836 Low molecular weight phosphatase family; Region: LMWPc; cd00115 420890001837 active site 420890001838 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 420890001839 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 420890001840 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 420890001841 active site 420890001842 catabolite control protein A; Region: ccpA; TIGR01481 420890001843 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 420890001844 DNA binding site [nucleotide binding] 420890001845 domain linker motif; other site 420890001846 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 420890001847 dimerization interface [polypeptide binding]; other site 420890001848 effector binding site; other site 420890001849 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 420890001850 DNA-binding site [nucleotide binding]; DNA binding site 420890001851 RNA-binding motif; other site 420890001852 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 420890001853 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 420890001854 active site 420890001855 catalytic residue [active] 420890001856 dimer interface [polypeptide binding]; other site 420890001857 adenylosuccinate lyase; Provisional; Region: PRK07492 420890001858 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 420890001859 tetramer interface [polypeptide binding]; other site 420890001860 active site 420890001861 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 420890001862 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 420890001863 dimerization interface [polypeptide binding]; other site 420890001864 putative DNA binding site [nucleotide binding]; other site 420890001865 putative Zn2+ binding site [ion binding]; other site 420890001866 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 420890001867 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 420890001868 Soluble P-type ATPase [General function prediction only]; Region: COG4087 420890001869 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 420890001870 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 420890001871 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 420890001872 Walker A/P-loop; other site 420890001873 ATP binding site [chemical binding]; other site 420890001874 Q-loop/lid; other site 420890001875 ABC transporter signature motif; other site 420890001876 Walker B; other site 420890001877 D-loop; other site 420890001878 H-loop/switch region; other site 420890001879 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 420890001880 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 420890001881 GIY-YIG motif/motif A; other site 420890001882 active site 420890001883 catalytic site [active] 420890001884 putative DNA binding site [nucleotide binding]; other site 420890001885 metal binding site [ion binding]; metal-binding site 420890001886 UvrB/uvrC motif; Region: UVR; pfam02151 420890001887 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 420890001888 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 420890001889 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 420890001890 minor groove reading motif; other site 420890001891 helix-hairpin-helix signature motif; other site 420890001892 substrate binding pocket [chemical binding]; other site 420890001893 active site 420890001894 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 420890001895 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 420890001896 DNA binding and oxoG recognition site [nucleotide binding] 420890001897 dipeptidase PepV; Reviewed; Region: PRK07318 420890001898 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 420890001899 active site 420890001900 metal binding site [ion binding]; metal-binding site 420890001901 Uncharacterized conserved protein [Function unknown]; Region: COG3589 420890001902 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 420890001903 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 420890001904 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 420890001905 putative active site [active] 420890001906 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 420890001907 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 420890001908 active site turn [active] 420890001909 phosphorylation site [posttranslational modification] 420890001910 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 420890001911 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 420890001912 HPr interaction site; other site 420890001913 glycerol kinase (GK) interaction site [polypeptide binding]; other site 420890001914 active site 420890001915 phosphorylation site [posttranslational modification] 420890001916 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 420890001917 alanine racemase; Reviewed; Region: alr; PRK00053 420890001918 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 420890001919 active site 420890001920 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 420890001921 dimer interface [polypeptide binding]; other site 420890001922 substrate binding site [chemical binding]; other site 420890001923 catalytic residues [active] 420890001924 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 420890001925 ArsC family; Region: ArsC; pfam03960 420890001926 putative catalytic residues [active] 420890001927 thiol/disulfide switch; other site 420890001928 nicotinamide mononucleotide transporter PnuC; Region: NMN_trans_PnuC; TIGR01528 420890001929 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 420890001930 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 420890001931 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14179 420890001932 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 420890001933 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 420890001934 homodimer interface [polypeptide binding]; other site 420890001935 NADP binding site [chemical binding]; other site 420890001936 substrate binding site [chemical binding]; other site 420890001937 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 420890001938 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 420890001939 generic binding surface II; other site 420890001940 generic binding surface I; other site 420890001941 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 420890001942 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 420890001943 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 420890001944 putative active site [active] 420890001945 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 420890001946 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 420890001947 active site 420890001948 phosphorylation site [posttranslational modification] 420890001949 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 420890001950 active site 420890001951 P-loop; other site 420890001952 phosphorylation site [posttranslational modification] 420890001953 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 420890001954 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 420890001955 alpha-mannosidase; Provisional; Region: PRK09819 420890001956 N-terminal catalytic domain of Escherichia coli alpha-mannosidase MngB and its bacterial homologs; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_EcMngB_like; cd10815 420890001957 active site 420890001958 metal binding site [ion binding]; metal-binding site 420890001959 catalytic site [active] 420890001960 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; cl08536 420890001961 Alpha amylase catalytic domain found in sucrose phosphorylase-like proteins (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase-like_1; cd11356 420890001962 sucrose phosphorylase; Region: sucrose_gtfA; TIGR03852 420890001963 active site 420890001964 homodimer interface [polypeptide binding]; other site 420890001965 catalytic site [active] 420890001966 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 420890001967 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 420890001968 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 420890001969 substrate binding pocket [chemical binding]; other site 420890001970 chain length determination region; other site 420890001971 substrate-Mg2+ binding site; other site 420890001972 catalytic residues [active] 420890001973 aspartate-rich region 1; other site 420890001974 active site lid residues [active] 420890001975 aspartate-rich region 2; other site 420890001976 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 420890001977 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 420890001978 RNA binding surface [nucleotide binding]; other site 420890001979 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 420890001980 Arginine repressor [Transcription]; Region: ArgR; COG1438 420890001981 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 420890001982 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 420890001983 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 420890001984 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 420890001985 Walker A/P-loop; other site 420890001986 ATP binding site [chemical binding]; other site 420890001987 Q-loop/lid; other site 420890001988 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 420890001989 ABC transporter signature motif; other site 420890001990 Walker B; other site 420890001991 D-loop; other site 420890001992 H-loop/switch region; other site 420890001993 Predicted membrane protein [Function unknown]; Region: COG3152 420890001994 Protein of unknown function (DUF805); Region: DUF805; cl01224 420890001995 FemAB family; Region: FemAB; pfam02388 420890001996 FemAB family; Region: FemAB; pfam02388 420890001997 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 420890001998 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 420890001999 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 420890002000 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 420890002001 Colicin V production protein; Region: Colicin_V; pfam02674 420890002002 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 420890002003 MutS domain III; Region: MutS_III; pfam05192 420890002004 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 420890002005 Walker A/P-loop; other site 420890002006 ATP binding site [chemical binding]; other site 420890002007 Q-loop/lid; other site 420890002008 ABC transporter signature motif; other site 420890002009 Walker B; other site 420890002010 D-loop; other site 420890002011 H-loop/switch region; other site 420890002012 Smr domain; Region: Smr; pfam01713 420890002013 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 420890002014 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 420890002015 catalytic residues [active] 420890002016 Protein of unknown function (DUF2969); Region: DUF2969; pfam11184 420890002017 FemAB family; Region: FemAB; pfam02388 420890002018 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 420890002019 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 420890002020 MraW methylase family; Region: Methyltransf_5; pfam01795 420890002021 Cell division protein FtsL; Region: FtsL; cl11433 420890002022 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 420890002023 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 420890002024 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 420890002025 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 420890002026 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 420890002027 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 420890002028 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 420890002029 Mg++ binding site [ion binding]; other site 420890002030 putative catalytic motif [active] 420890002031 putative substrate binding site [chemical binding]; other site 420890002032 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 420890002033 synthetase active site [active] 420890002034 NTP binding site [chemical binding]; other site 420890002035 metal binding site [ion binding]; metal-binding site 420890002036 Response regulator receiver domain; Region: Response_reg; pfam00072 420890002037 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 420890002038 active site 420890002039 phosphorylation site [posttranslational modification] 420890002040 intermolecular recognition site; other site 420890002041 dimerization interface [polypeptide binding]; other site 420890002042 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 420890002043 HAMP domain; Region: HAMP; pfam00672 420890002044 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 420890002045 dimer interface [polypeptide binding]; other site 420890002046 phosphorylation site [posttranslational modification] 420890002047 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 420890002048 ATP binding site [chemical binding]; other site 420890002049 Mg2+ binding site [ion binding]; other site 420890002050 G-X-G motif; other site 420890002051 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 420890002052 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 420890002053 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 420890002054 substrate binding pocket [chemical binding]; other site 420890002055 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 420890002056 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 420890002057 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 420890002058 putative active site [active] 420890002059 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 420890002060 HPr interaction site; other site 420890002061 glycerol kinase (GK) interaction site [polypeptide binding]; other site 420890002062 active site 420890002063 phosphorylation site [posttranslational modification] 420890002064 bifunctional PTS system maltose and glucose-specific transporter subunits IICB; Provisional; Region: PRK10110 420890002065 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 420890002066 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 420890002067 active site turn [active] 420890002068 phosphorylation site [posttranslational modification] 420890002069 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 420890002070 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 420890002071 pyridoxal 5'-phosphate binding site [chemical binding]; other site 420890002072 homodimer interface [polypeptide binding]; other site 420890002073 catalytic residue [active] 420890002074 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 420890002075 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 420890002076 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 420890002077 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 420890002078 putative transposase OrfB; Reviewed; Region: PHA02517 420890002079 HTH-like domain; Region: HTH_21; pfam13276 420890002080 Integrase core domain; Region: rve; pfam00665 420890002081 Integrase core domain; Region: rve_3; pfam13683 420890002082 Transposase; Region: HTH_Tnp_1; pfam01527 420890002083 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 420890002084 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 420890002085 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 420890002086 active site 420890002087 intersubunit interface [polypeptide binding]; other site 420890002088 catalytic residue [active] 420890002089 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 420890002090 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 420890002091 CoenzymeA binding site [chemical binding]; other site 420890002092 subunit interaction site [polypeptide binding]; other site 420890002093 PHB binding site; other site 420890002094 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 420890002095 metal binding site [ion binding]; metal-binding site 420890002096 substrate binding pocket [chemical binding]; other site 420890002097 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 420890002098 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 420890002099 O-succinylbenzoate-CoA ligase; Region: menE; TIGR01923 420890002100 acyl-activating enzyme (AAE) consensus motif; other site 420890002101 putative AMP binding site [chemical binding]; other site 420890002102 putative active site [active] 420890002103 putative CoA binding site [chemical binding]; other site 420890002104 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 420890002105 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 420890002106 substrate binding site [chemical binding]; other site 420890002107 oxyanion hole (OAH) forming residues; other site 420890002108 trimer interface [polypeptide binding]; other site 420890002109 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 420890002110 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 420890002111 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase [Coenzyme metabolism]; Region: MenD; COG1165 420890002112 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 420890002113 dimer interface [polypeptide binding]; other site 420890002114 tetramer interface [polypeptide binding]; other site 420890002115 PYR/PP interface [polypeptide binding]; other site 420890002116 TPP binding site [chemical binding]; other site 420890002117 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 420890002118 TPP-binding site; other site 420890002119 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 420890002120 chorismate binding enzyme; Region: Chorismate_bind; cl10555 420890002121 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 420890002122 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 420890002123 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 420890002124 DRTGG domain; Region: DRTGG; pfam07085 420890002125 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 420890002126 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 420890002127 DHH family; Region: DHH; pfam01368 420890002128 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 420890002129 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 420890002130 active site 420890002131 homotetramer interface [polypeptide binding]; other site 420890002132 homodimer interface [polypeptide binding]; other site 420890002133 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 420890002134 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 420890002135 active site 420890002136 motif I; other site 420890002137 motif II; other site 420890002138 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 420890002139 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Exiguobacterium sibiricum YP_001813558.1 protein and its bacterial homologs; Region: NTP-PPase_YP_001813558; cd11545 420890002140 putative nucleotide binding site [chemical binding]; other site 420890002141 putative metal binding site [ion binding]; other site 420890002142 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 420890002143 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 420890002144 motif II; other site 420890002145 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 420890002146 DHH family; Region: DHH; pfam01368 420890002147 DHHA1 domain; Region: DHHA1; pfam02272 420890002148 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 420890002149 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 420890002150 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 420890002151 replicative DNA helicase; Provisional; Region: PRK05748 420890002152 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 420890002153 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 420890002154 Walker A motif; other site 420890002155 ATP binding site [chemical binding]; other site 420890002156 Walker B motif; other site 420890002157 DNA binding loops [nucleotide binding] 420890002158 Uncharacterized protein conserved in bacteria [Function unknown]; Region: Veg; COG4466 420890002159 Thiamine kinase and related kinases [Coenzyme transport and metabolism]; Region: ycfN; COG0510 420890002160 Phosphotransferase enzyme family; Region: APH; pfam01636 420890002161 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 420890002162 S-adenosylmethionine binding site [chemical binding]; other site 420890002163 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 420890002164 ATP cone domain; Region: ATP-cone; pfam03477 420890002165 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 420890002166 primosomal protein DnaI; Reviewed; Region: PRK08939 420890002167 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 420890002168 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 420890002169 Walker A motif; other site 420890002170 ATP binding site [chemical binding]; other site 420890002171 Walker B motif; other site 420890002172 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 420890002173 dimer interface [polypeptide binding]; other site 420890002174 FMN binding site [chemical binding]; other site 420890002175 NADPH bind site [chemical binding]; other site 420890002176 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 420890002177 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 420890002178 potential frameshift: common BLAST hit: gi|347521245|ref|YP_004778816.1| transcriptional antiterminator 420890002179 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 420890002180 PRD domain; Region: PRD; pfam00874 420890002181 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 420890002182 active site 420890002183 P-loop; other site 420890002184 phosphorylation site [posttranslational modification] 420890002185 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 420890002186 active site 420890002187 phosphorylation site [posttranslational modification] 420890002188 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 420890002189 active site 420890002190 P-loop; other site 420890002191 phosphorylation site [posttranslational modification] 420890002192 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 420890002193 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 420890002194 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 420890002195 TPP-binding site [chemical binding]; other site 420890002196 dimer interface [polypeptide binding]; other site 420890002197 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 420890002198 PYR/PP interface [polypeptide binding]; other site 420890002199 dimer interface [polypeptide binding]; other site 420890002200 TPP binding site [chemical binding]; other site 420890002201 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 420890002202 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 420890002203 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 420890002204 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 420890002205 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 420890002206 putative transposase OrfB; Reviewed; Region: PHA02517 420890002207 HTH-like domain; Region: HTH_21; pfam13276 420890002208 Integrase core domain; Region: rve; pfam00665 420890002209 Integrase core domain; Region: rve_3; pfam13683 420890002210 Transposase; Region: HTH_Tnp_1; pfam01527 420890002211 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 420890002212 Bacterial protein of unknown function (DUF916); Region: DUF916; pfam06030 420890002213 WxL domain surface cell wall-binding; Region: WxL; pfam13731 420890002214 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 420890002215 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 420890002216 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 420890002217 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 420890002218 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 420890002219 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 420890002220 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 420890002221 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 420890002222 TrkA-N domain; Region: TrkA_N; pfam02254 420890002223 TrkA-C domain; Region: TrkA_C; pfam02080 420890002224 signal recognition particle protein; Provisional; Region: PRK10867 420890002225 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 420890002226 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 420890002227 P loop; other site 420890002228 GTP binding site [chemical binding]; other site 420890002229 Signal peptide binding domain; Region: SRP_SPB; pfam02978 420890002230 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 420890002231 Domain of unknown function DUF20; Region: UPF0118; pfam01594 420890002232 GTP-binding protein Der; Reviewed; Region: PRK00093 420890002233 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 420890002234 G1 box; other site 420890002235 GTP/Mg2+ binding site [chemical binding]; other site 420890002236 Switch I region; other site 420890002237 G2 box; other site 420890002238 Switch II region; other site 420890002239 G3 box; other site 420890002240 G4 box; other site 420890002241 G5 box; other site 420890002242 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 420890002243 G1 box; other site 420890002244 GTP/Mg2+ binding site [chemical binding]; other site 420890002245 Switch I region; other site 420890002246 G2 box; other site 420890002247 G3 box; other site 420890002248 Switch II region; other site 420890002249 G4 box; other site 420890002250 G5 box; other site 420890002251 CHAP domain; Region: CHAP; pfam05257 420890002252 LrgB-like family; Region: LrgB; pfam04172 420890002253 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 420890002254 ribosome maturation protein RimP; Reviewed; Region: PRK00092 420890002255 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 420890002256 putative oligomer interface [polypeptide binding]; other site 420890002257 putative RNA binding site [nucleotide binding]; other site 420890002258 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 420890002259 NusA N-terminal domain; Region: NusA_N; pfam08529 420890002260 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 420890002261 RNA binding site [nucleotide binding]; other site 420890002262 homodimer interface [polypeptide binding]; other site 420890002263 NusA-like KH domain; Region: KH_5; pfam13184 420890002264 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 420890002265 G-X-X-G motif; other site 420890002266 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 420890002267 putative RNA binding cleft [nucleotide binding]; other site 420890002268 hypothetical protein; Provisional; Region: PRK07283 420890002269 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 420890002270 translation initiation factor IF-2; Region: IF-2; TIGR00487 420890002271 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 420890002272 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 420890002273 G1 box; other site 420890002274 putative GEF interaction site [polypeptide binding]; other site 420890002275 GTP/Mg2+ binding site [chemical binding]; other site 420890002276 Switch I region; other site 420890002277 G2 box; other site 420890002278 G3 box; other site 420890002279 Switch II region; other site 420890002280 G4 box; other site 420890002281 G5 box; other site 420890002282 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 420890002283 Translation-initiation factor 2; Region: IF-2; pfam11987 420890002284 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 420890002285 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 420890002286 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 420890002287 Cation efflux family; Region: Cation_efflux; pfam01545 420890002288 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 420890002289 mannose-6-phosphate isomerase, class I; Region: manA; TIGR00218 420890002290 myosin-cross-reactive antigen; Provisional; Region: PRK13977 420890002291 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 420890002292 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 420890002293 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 420890002294 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 420890002295 ATP-binding site [chemical binding]; other site 420890002296 Sugar specificity; other site 420890002297 Pyrimidine base specificity; other site 420890002298 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 420890002299 ribonuclease III; Reviewed; Region: rnc; PRK00102 420890002300 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 420890002301 dimerization interface [polypeptide binding]; other site 420890002302 active site 420890002303 metal binding site [ion binding]; metal-binding site 420890002304 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 420890002305 dsRNA binding site [nucleotide binding]; other site 420890002306 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 420890002307 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 420890002308 Walker A/P-loop; other site 420890002309 ATP binding site [chemical binding]; other site 420890002310 Q-loop/lid; other site 420890002311 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 420890002312 Inter-Src homology 2 (iSH2) helical domain of Class IA Phosphoinositide 3-kinase Regulatory subunits; Region: iSH2_PI3K_IA_R; cl17108 420890002313 heterodimer interface [polypeptide binding]; other site 420890002314 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 420890002315 ABC transporter signature motif; other site 420890002316 Walker B; other site 420890002317 D-loop; other site 420890002318 H-loop/switch region; other site 420890002319 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 420890002320 Sulfatase; Region: Sulfatase; pfam00884 420890002321 conserved hypothetical integral membrane protein; Region: TIGR03766 420890002322 YibE/F-like protein; Region: YibE_F; cl02259 420890002323 YibE/F-like protein; Region: YibE_F; cl02259 420890002324 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 420890002325 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 420890002326 active site 420890002327 motif I; other site 420890002328 motif II; other site 420890002329 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 420890002330 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 420890002331 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 420890002332 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 420890002333 P loop; other site 420890002334 GTP binding site [chemical binding]; other site 420890002335 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02269 420890002336 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 420890002337 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 420890002338 active site 420890002339 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 420890002340 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 420890002341 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 420890002342 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 420890002343 HIGH motif; other site 420890002344 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 420890002345 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 420890002346 active site 420890002347 KMSKS motif; other site 420890002348 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 420890002349 tRNA binding surface [nucleotide binding]; other site 420890002350 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 420890002351 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 420890002352 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 420890002353 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 420890002354 Domain of unknown function DUF20; Region: UPF0118; pfam01594 420890002355 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4918 420890002356 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 420890002357 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 420890002358 Predicted membrane protein [Function unknown]; Region: COG2259 420890002359 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Provisional; Region: PRK13387 420890002360 UbiA prenyltransferase family; Region: UbiA; pfam01040 420890002361 AMP-binding enzyme; Region: AMP-binding; pfam00501 420890002362 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 420890002363 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 420890002364 acyl-activating enzyme (AAE) consensus motif; other site 420890002365 acyl-activating enzyme (AAE) consensus motif; other site 420890002366 AMP binding site [chemical binding]; other site 420890002367 active site 420890002368 CoA binding site [chemical binding]; other site 420890002369 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 420890002370 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 420890002371 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 420890002372 putative L-serine binding site [chemical binding]; other site 420890002373 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 420890002374 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 420890002375 Predicted transcriptional regulator [Transcription]; Region: COG3682 420890002376 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 420890002377 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 420890002378 metal-binding site [ion binding] 420890002379 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 420890002380 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 420890002381 metal-binding site [ion binding] 420890002382 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 420890002383 Soluble P-type ATPase [General function prediction only]; Region: COG4087 420890002384 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 420890002385 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 420890002386 ATP binding site [chemical binding]; other site 420890002387 putative Mg++ binding site [ion binding]; other site 420890002388 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 420890002389 nucleotide binding region [chemical binding]; other site 420890002390 ATP-binding site [chemical binding]; other site 420890002391 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 420890002392 HRDC domain; Region: HRDC; pfam00570 420890002393 Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked glycoproteins. This enzyme is an amidase located inside lysosomes. Mutation of this gene in humans causes a genetic disorder known as aspartylglycosaminuria (AGU)...; Region: Glycosylasparaginase; cd04513 420890002394 active site 420890002395 dimer interface [polypeptide binding]; other site 420890002396 catalytic nucleophile [active] 420890002397 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 420890002398 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 420890002399 glycine reductase, selenoprotein B; Region: gly_red_sel_B; TIGR01917 420890002400 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 420890002401 dipeptidase, putative; Region: dipeptidaselike; TIGR01887 420890002402 active site 420890002403 metal binding site [ion binding]; metal-binding site 420890002404 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 420890002405 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 420890002406 DNA-binding site [nucleotide binding]; DNA binding site 420890002407 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 420890002408 putative transposase OrfB; Reviewed; Region: PHA02517 420890002409 HTH-like domain; Region: HTH_21; pfam13276 420890002410 Integrase core domain; Region: rve; pfam00665 420890002411 Integrase core domain; Region: rve_3; pfam13683 420890002412 Transposase; Region: HTH_Tnp_1; pfam01527 420890002413 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 420890002414 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 420890002415 MarR family; Region: MarR_2; pfam12802 420890002416 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 420890002417 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 420890002418 putative substrate translocation pore; other site 420890002419 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 420890002420 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 420890002421 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 420890002422 putative active site [active] 420890002423 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 420890002424 Major Facilitator Superfamily; Region: MFS_1; pfam07690 420890002425 putative substrate translocation pore; other site 420890002426 phosphopentomutase; Provisional; Region: PRK05362 420890002427 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 420890002428 Putative zinc ribbon domain; Region: Zn_ribbon_2; pfam12674 420890002429 purine nucleoside phosphorylase; Provisional; Region: PRK08202 420890002430 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 420890002431 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 420890002432 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 420890002433 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 420890002434 Potassium binding sites [ion binding]; other site 420890002435 Cesium cation binding sites [ion binding]; other site 420890002436 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 420890002437 dimer interface [polypeptide binding]; other site 420890002438 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 420890002439 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 420890002440 substrate binding pocket [chemical binding]; other site 420890002441 membrane-bound complex binding site; other site 420890002442 hinge residues; other site 420890002443 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 420890002444 dimer interface [polypeptide binding]; other site 420890002445 conserved gate region; other site 420890002446 putative PBP binding loops; other site 420890002447 ABC-ATPase subunit interface; other site 420890002448 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 420890002449 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 420890002450 Walker A/P-loop; other site 420890002451 ATP binding site [chemical binding]; other site 420890002452 Q-loop/lid; other site 420890002453 ABC transporter signature motif; other site 420890002454 Walker B; other site 420890002455 D-loop; other site 420890002456 H-loop/switch region; other site 420890002457 Protein of unknown function (DUF4059); Region: DUF4059; pfam13268 420890002458 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 420890002459 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 420890002460 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 420890002461 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 420890002462 Predicted esterase [General function prediction only]; Region: COG0400 420890002463 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 420890002464 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 420890002465 Zn binding site [ion binding]; other site 420890002466 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 420890002467 Zn binding site [ion binding]; other site 420890002468 inner membrane transporter YjeM; Provisional; Region: PRK15238 420890002469 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 420890002470 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_14; cd04672 420890002471 nudix motif; other site 420890002472 ribonuclease R; Region: RNase_R; TIGR02063 420890002473 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 420890002474 RNB domain; Region: RNB; pfam00773 420890002475 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 420890002476 RNA binding site [nucleotide binding]; other site 420890002477 Isochorismatase family; Region: Isochorismatase; pfam00857 420890002478 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 420890002479 catalytic triad [active] 420890002480 conserved cis-peptide bond; other site 420890002481 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 420890002482 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 420890002483 Predicted membrane protein [Function unknown]; Region: COG2261 420890002484 Small integral membrane protein [Function unknown]; Region: COG5547 420890002485 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 420890002486 Predicted membrane protein (DUF2177); Region: DUF2177; cl02014 420890002487 Predicted kinase related to dihydroxyacetone kinase [General function prediction only]; Region: COG1461 420890002488 DAK2 domain; Region: Dak2; pfam02734 420890002489 EDD domain protein, DegV family; Region: DegV; TIGR00762 420890002490 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 420890002491 Steroid 5-alpha reductase family enzyme [General function prediction only]; Region: COG3752 420890002492 Transcriptional regulators [Transcription]; Region: PurR; COG1609 420890002493 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 420890002494 DNA binding site [nucleotide binding] 420890002495 domain linker motif; other site 420890002496 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 420890002497 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 420890002498 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 420890002499 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 420890002500 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 420890002501 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 420890002502 ABC transporter; Region: ABC_tran_2; pfam12848 420890002503 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 420890002504 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 420890002505 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 420890002506 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 420890002507 putative active site [active] 420890002508 catalytic site [active] 420890002509 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 420890002510 putative active site [active] 420890002511 catalytic site [active] 420890002512 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 420890002513 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 420890002514 Family of CofD-like proteins and proteins related to YvcK; Region: CofD_YvcK; cd07044 420890002515 dimer interface [polypeptide binding]; other site 420890002516 phosphate binding site [ion binding]; other site 420890002517 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 420890002518 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 420890002519 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 420890002520 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 420890002521 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 420890002522 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 420890002523 Walker A/P-loop; other site 420890002524 ATP binding site [chemical binding]; other site 420890002525 Q-loop/lid; other site 420890002526 ABC transporter signature motif; other site 420890002527 Walker B; other site 420890002528 D-loop; other site 420890002529 H-loop/switch region; other site 420890002530 Putative exporter of polyketide antibiotics [Cell envelope biogenesis, outer membrane]; Region: TnrB3; COG3559 420890002531 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 420890002532 hypothetical protein; Provisional; Region: PRK13662 420890002533 putative phosphoesterase; Region: acc_ester; TIGR03729 420890002534 Chloramphenicol acetyltransferase; Region: CAT; cl02008 420890002535 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 420890002536 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 420890002537 active site residue [active] 420890002538 sugar phosphate phosphatase; Provisional; Region: PRK10513 420890002539 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 420890002540 active site 420890002541 motif I; other site 420890002542 motif II; other site 420890002543 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 420890002544 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 420890002545 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 420890002546 Zn2+ binding site [ion binding]; other site 420890002547 Mg2+ binding site [ion binding]; other site 420890002548 Domain of unknown function (DUF1934); Region: DUF1934; cl01870 420890002549 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 420890002550 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 420890002551 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 420890002552 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 420890002553 hypothetical protein; Provisional; Region: PRK14553 420890002554 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 420890002555 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 420890002556 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 420890002557 hexamer interface [polypeptide binding]; other site 420890002558 ligand binding site [chemical binding]; other site 420890002559 putative active site [active] 420890002560 NAD(P) binding site [chemical binding]; other site 420890002561 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 420890002562 PhoH-like protein; Region: PhoH; pfam02562 420890002563 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 420890002564 nudix motif; other site 420890002565 metal-binding heat shock protein; Provisional; Region: PRK00016 420890002566 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 420890002567 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 420890002568 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 420890002569 active site 420890002570 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 420890002571 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 420890002572 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 420890002573 ATP binding site [chemical binding]; other site 420890002574 putative Mg++ binding site [ion binding]; other site 420890002575 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 420890002576 nucleotide binding region [chemical binding]; other site 420890002577 ATP-binding site [chemical binding]; other site 420890002578 Uncharacterized conserved protein [Function unknown]; Region: COG1739 420890002579 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 420890002580 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 420890002581 hypothetical protein; Provisional; Region: PRK14013 420890002582 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 420890002583 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 420890002584 Formate/nitrite family of transporters [Inorganic ion transport and metabolism]; Region: FocA; COG2116 420890002585 glycyl-tRNA synthetase subunit alpha; Validated; Region: glyQ; PRK09348 420890002586 motif 1; other site 420890002587 dimer interface [polypeptide binding]; other site 420890002588 active site 420890002589 motif 2; other site 420890002590 motif 3; other site 420890002591 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 420890002592 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 420890002593 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4224 420890002594 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 420890002595 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 420890002596 putative Cl- selectivity filter; other site 420890002597 putative pore gating glutamate residue; other site 420890002598 Mga helix-turn-helix domain; Region: Mga; pfam05043 420890002599 glycerol kinase; Provisional; Region: glpK; PRK00047 420890002600 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 420890002601 N- and C-terminal domain interface [polypeptide binding]; other site 420890002602 active site 420890002603 MgATP binding site [chemical binding]; other site 420890002604 catalytic site [active] 420890002605 metal binding site [ion binding]; metal-binding site 420890002606 glycerol binding site [chemical binding]; other site 420890002607 homotetramer interface [polypeptide binding]; other site 420890002608 homodimer interface [polypeptide binding]; other site 420890002609 FBP binding site [chemical binding]; other site 420890002610 protein IIAGlc interface [polypeptide binding]; other site 420890002611 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 420890002612 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 420890002613 amphipathic channel; other site 420890002614 Asn-Pro-Ala signature motifs; other site 420890002615 putative PTS system transporter subunits IIBC; Provisional; Region: PRK11404 420890002616 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 420890002617 active site 420890002618 P-loop; other site 420890002619 phosphorylation site [posttranslational modification] 420890002620 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 420890002621 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 420890002622 active site 420890002623 phosphorylation site [posttranslational modification] 420890002624 alpha-mannosidase; Provisional; Region: PRK09819 420890002625 N-terminal catalytic domain of Escherichia coli alpha-mannosidase MngB and its bacterial homologs; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_EcMngB_like; cd10815 420890002626 active site 420890002627 metal binding site [ion binding]; metal-binding site 420890002628 catalytic site [active] 420890002629 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; cl08536 420890002630 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 420890002631 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 420890002632 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 420890002633 putative active site [active] 420890002634 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 420890002635 beta-galactosidase; Region: BGL; TIGR03356 420890002636 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 420890002637 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 420890002638 nucleotide binding site [chemical binding]; other site 420890002639 Uncharacterized protein conserved in bacteria (DUF2200); Region: DUF2200; cl02047 420890002640 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 420890002641 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 420890002642 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 420890002643 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 420890002644 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 420890002645 motif II; other site 420890002646 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 420890002647 1,4-dihydroxy-2-naphthoate octaprenyltransferase [Coenzyme metabolism]; Region: MenA; COG1575 420890002648 UbiA prenyltransferase family; Region: UbiA; pfam01040 420890002649 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 420890002650 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 420890002651 Coenzyme A binding pocket [chemical binding]; other site 420890002652 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 420890002653 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 420890002654 active site 420890002655 metal binding site [ion binding]; metal-binding site 420890002656 DNA binding site [nucleotide binding] 420890002657 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 420890002658 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 420890002659 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 420890002660 Walker A/P-loop; other site 420890002661 ATP binding site [chemical binding]; other site 420890002662 Q-loop/lid; other site 420890002663 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 420890002664 ABC transporter signature motif; other site 420890002665 Walker B; other site 420890002666 D-loop; other site 420890002667 H-loop/switch region; other site 420890002668 GTPase CgtA; Reviewed; Region: obgE; PRK12297 420890002669 GTP1/OBG; Region: GTP1_OBG; pfam01018 420890002670 Obg GTPase; Region: Obg; cd01898 420890002671 G1 box; other site 420890002672 GTP/Mg2+ binding site [chemical binding]; other site 420890002673 Switch I region; other site 420890002674 G2 box; other site 420890002675 G3 box; other site 420890002676 Switch II region; other site 420890002677 G4 box; other site 420890002678 G5 box; other site 420890002679 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 420890002680 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 420890002681 RibD C-terminal domain; Region: RibD_C; cl17279 420890002682 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 420890002683 ribonuclease R; Region: RNase_R; TIGR02063 420890002684 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 420890002685 RNB domain; Region: RNB; pfam00773 420890002686 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 420890002687 RNA binding site [nucleotide binding]; other site 420890002688 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 420890002689 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 420890002690 active site 420890002691 (T/H)XGH motif; other site 420890002692 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 420890002693 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 420890002694 active site 420890002695 putative acetyltransferase YhhY; Provisional; Region: PRK10140 420890002696 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 420890002697 Coenzyme A binding pocket [chemical binding]; other site 420890002698 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 420890002699 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 420890002700 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 420890002701 homodimer interface [polypeptide binding]; other site 420890002702 NAD binding pocket [chemical binding]; other site 420890002703 ATP binding pocket [chemical binding]; other site 420890002704 Mg binding site [ion binding]; other site 420890002705 active-site loop [active] 420890002706 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 420890002707 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 420890002708 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 420890002709 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 420890002710 Walker A/P-loop; other site 420890002711 ATP binding site [chemical binding]; other site 420890002712 Q-loop/lid; other site 420890002713 ABC transporter signature motif; other site 420890002714 Walker B; other site 420890002715 D-loop; other site 420890002716 H-loop/switch region; other site 420890002717 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 420890002718 FtsX-like permease family; Region: FtsX; pfam02687 420890002719 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 420890002720 FtsX-like permease family; Region: FtsX; pfam02687 420890002721 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 420890002722 catalytic triad [active] 420890002723 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 420890002724 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 420890002725 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 420890002726 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 420890002727 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 420890002728 WxL domain surface cell wall-binding; Region: WxL; pfam13731 420890002729 Bacterial protein of unknown function (DUF916); Region: DUF916; pfam06030 420890002730 Protein of unknown function C-terminal (DUF3324); Region: DUF3324; pfam11797 420890002731 Mga helix-turn-helix domain; Region: Mga; pfam05043 420890002732 GTP-binding protein LepA; Provisional; Region: PRK05433 420890002733 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 420890002734 G1 box; other site 420890002735 putative GEF interaction site [polypeptide binding]; other site 420890002736 GTP/Mg2+ binding site [chemical binding]; other site 420890002737 Switch I region; other site 420890002738 G2 box; other site 420890002739 G3 box; other site 420890002740 Switch II region; other site 420890002741 G4 box; other site 420890002742 G5 box; other site 420890002743 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 420890002744 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 420890002745 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 420890002746 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 420890002747 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 420890002748 Walker A/P-loop; other site 420890002749 ATP binding site [chemical binding]; other site 420890002750 Q-loop/lid; other site 420890002751 ABC transporter signature motif; other site 420890002752 Walker B; other site 420890002753 D-loop; other site 420890002754 H-loop/switch region; other site 420890002755 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 420890002756 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 420890002757 FtsX-like permease family; Region: FtsX; pfam02687 420890002758 Uncharacterized conserved protein [Function unknown]; Region: COG1359 420890002759 Predicted membrane protein [Function unknown]; Region: COG3759 420890002760 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 420890002761 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 420890002762 potential catalytic triad [active] 420890002763 conserved cys residue [active] 420890002764 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 420890002765 MarR family; Region: MarR; pfam01047 420890002766 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 420890002767 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 420890002768 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 420890002769 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 420890002770 active site 420890002771 P-loop; other site 420890002772 phosphorylation site [posttranslational modification] 420890002773 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 420890002774 active site 420890002775 P-loop; other site 420890002776 phosphorylation site [posttranslational modification] 420890002777 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 420890002778 PRD domain; Region: PRD; pfam00874 420890002779 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 420890002780 active site 420890002781 P-loop; other site 420890002782 phosphorylation site [posttranslational modification] 420890002783 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 420890002784 active site 420890002785 phosphorylation site [posttranslational modification] 420890002786 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 420890002787 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 420890002788 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 420890002789 Protein of unknown function (DUF3048); Region: DUF3048; pfam11258 420890002790 phosphodiesterase YaeI; Provisional; Region: PRK11340 420890002791 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 420890002792 putative active site [active] 420890002793 putative metal binding site [ion binding]; other site 420890002794 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 420890002795 ArsC family; Region: ArsC; pfam03960 420890002796 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 420890002797 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08588 420890002798 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 420890002799 metal binding site [ion binding]; metal-binding site 420890002800 dimer interface [polypeptide binding]; other site 420890002801 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 420890002802 active site 420890002803 metal binding site [ion binding]; metal-binding site 420890002804 lipoprotein signal peptidase; Provisional; Region: PRK14797 420890002805 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 420890002806 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 420890002807 RNA binding surface [nucleotide binding]; other site 420890002808 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 420890002809 active site 420890002810 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 420890002811 FAD binding domain; Region: FAD_binding_4; pfam01565 420890002812 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 420890002813 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 420890002814 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 420890002815 motif II; other site 420890002816 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 420890002817 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 420890002818 Walker A/P-loop; other site 420890002819 ATP binding site [chemical binding]; other site 420890002820 Q-loop/lid; other site 420890002821 ABC transporter signature motif; other site 420890002822 Walker B; other site 420890002823 D-loop; other site 420890002824 H-loop/switch region; other site 420890002825 TOBE domain; Region: TOBE_2; pfam08402 420890002826 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 420890002827 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 420890002828 dimer interface [polypeptide binding]; other site 420890002829 conserved gate region; other site 420890002830 putative PBP binding loops; other site 420890002831 ABC-ATPase subunit interface; other site 420890002832 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 420890002833 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 420890002834 dimer interface [polypeptide binding]; other site 420890002835 conserved gate region; other site 420890002836 putative PBP binding loops; other site 420890002837 ABC-ATPase subunit interface; other site 420890002838 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 420890002839 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 420890002840 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 420890002841 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 420890002842 Int/Topo IB signature motif; other site 420890002843 putative transposase OrfB; Reviewed; Region: PHA02517 420890002844 HTH-like domain; Region: HTH_21; pfam13276 420890002845 Integrase core domain; Region: rve; pfam00665 420890002846 Integrase core domain; Region: rve_3; pfam13683 420890002847 Transposase; Region: HTH_Tnp_1; pfam01527 420890002848 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 420890002849 CHAP domain; Region: CHAP; cl17642 420890002850 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 420890002851 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 420890002852 non-specific DNA binding site [nucleotide binding]; other site 420890002853 salt bridge; other site 420890002854 sequence-specific DNA binding site [nucleotide binding]; other site 420890002855 Uncharacterized phage-associated protein [Function unknown]; Region: GepA; COG3600 420890002856 Cpl-7 lysozyme C-terminal domain; Region: Cpl-7; pfam08230 420890002857 Transglycosylase-like domain; Region: Transglycosylas; pfam06737 420890002858 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 420890002859 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 420890002860 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 420890002861 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 420890002862 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 420890002863 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 420890002864 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 420890002865 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 420890002866 RNA binding surface [nucleotide binding]; other site 420890002867 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 420890002868 active site 420890002869 uracil binding [chemical binding]; other site 420890002870 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 420890002871 catalytic residues [active] 420890002872 dimer interface [polypeptide binding]; other site 420890002873 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 420890002874 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 420890002875 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 420890002876 putative active site [active] 420890002877 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 420890002878 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 420890002879 Walker A/P-loop; other site 420890002880 ATP binding site [chemical binding]; other site 420890002881 Q-loop/lid; other site 420890002882 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 420890002883 ABC transporter signature motif; other site 420890002884 Walker B; other site 420890002885 D-loop; other site 420890002886 ABC transporter; Region: ABC_tran_2; pfam12848 420890002887 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 420890002888 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 420890002889 active site 420890002890 dihydroorotase; Validated; Region: pyrC; PRK09357 420890002891 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 420890002892 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 420890002893 active site 420890002894 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 420890002895 hydrophobic ligand binding site; other site 420890002896 Predicted acetyltransferase involved in intracellular survival and related acetyltransferases [General function prediction only]; Region: Eis; COG4552 420890002897 Acetyltransferase (GNAT) domain; Region: Acetyltransf_9; pfam13527 420890002898 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 420890002899 active site 420890002900 P-loop; other site 420890002901 phosphorylation site [posttranslational modification] 420890002902 Uncharacterized conserved protein [Function unknown]; Region: COG3589 420890002903 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 420890002904 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 420890002905 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 420890002906 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 420890002907 active site residue [active] 420890002908 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 420890002909 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 420890002910 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 420890002911 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 420890002912 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 420890002913 active site residue [active] 420890002914 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 420890002915 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 420890002916 catalytic motif [active] 420890002917 Zn binding site [ion binding]; other site 420890002918 Acyl-ACP thioesterase [Lipid metabolism]; Region: FatA; COG3884 420890002919 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 420890002920 active site 420890002921 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 420890002922 active site 2 [active] 420890002923 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 420890002924 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 420890002925 active site 420890002926 motif I; other site 420890002927 motif II; other site 420890002928 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 420890002929 Protein of unknown function (DUF1461); Region: DUF1461; pfam07314 420890002930 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 420890002931 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 420890002932 active site 420890002933 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 420890002934 NAD(P) binding site [chemical binding]; other site 420890002935 NADH(P)-binding; Region: NAD_binding_10; pfam13460 420890002936 active site 420890002937 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 420890002938 non-specific DNA binding site [nucleotide binding]; other site 420890002939 salt bridge; other site 420890002940 sequence-specific DNA binding site [nucleotide binding]; other site 420890002941 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 420890002942 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 420890002943 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 420890002944 metal binding site [ion binding]; metal-binding site 420890002945 active site 420890002946 I-site; other site 420890002947 Protein of unknown function (DUF3529); Region: DUF3529; pfam12046 420890002948 N-glycosyltransferase; Provisional; Region: PRK11204 420890002949 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 420890002950 DXD motif; other site 420890002951 EAL domain; Region: EAL; pfam00563 420890002952 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 420890002953 Predicted membrane protein [Function unknown]; Region: COG3601 420890002954 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 420890002955 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 420890002956 23S rRNA interface [nucleotide binding]; other site 420890002957 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 420890002958 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 420890002959 core dimer interface [polypeptide binding]; other site 420890002960 peripheral dimer interface [polypeptide binding]; other site 420890002961 L10 interface [polypeptide binding]; other site 420890002962 L11 interface [polypeptide binding]; other site 420890002963 putative EF-Tu interaction site [polypeptide binding]; other site 420890002964 putative EF-G interaction site [polypeptide binding]; other site 420890002965 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 420890002966 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 420890002967 D-loop; other site 420890002968 H-loop/switch region; other site 420890002969 DsrE/DsrF-like family; Region: DrsE; cl00672 420890002970 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 420890002971 active site 420890002972 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 420890002973 Zn binding site [ion binding]; other site 420890002974 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 420890002975 active site 420890002976 Protein of unknown function (DUF1211); Region: DUF1211; cl01421 420890002977 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 420890002978 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 420890002979 Coenzyme A binding pocket [chemical binding]; other site 420890002980 amidase; Provisional; Region: PRK06529 420890002981 Amidase; Region: Amidase; cl11426 420890002982 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 420890002983 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 420890002984 substrate binding pocket [chemical binding]; other site 420890002985 membrane-bound complex binding site; other site 420890002986 hinge residues; other site 420890002987 OsmC-like protein; Region: OsmC; cl00767 420890002988 bifunctional glutamate--cysteine ligase/glutathione synthetase; Provisional; Region: PRK02471 420890002989 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 420890002990 ATP-grasp domain; Region: ATP-grasp_4; cl17255 420890002991 Major Facilitator Superfamily; Region: MFS_1; pfam07690 420890002992 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 420890002993 putative substrate translocation pore; other site 420890002994 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 420890002995 Predicted transcriptional regulator [Transcription]; Region: COG1959 420890002996 Transcriptional regulator; Region: Rrf2; pfam02082 420890002997 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 420890002998 NADH(P)-binding; Region: NAD_binding_10; pfam13460 420890002999 NAD binding site [chemical binding]; other site 420890003000 substrate binding site [chemical binding]; other site 420890003001 putative active site [active] 420890003002 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 420890003003 Clp amino terminal domain; Region: Clp_N; pfam02861 420890003004 Clp amino terminal domain; Region: Clp_N; pfam02861 420890003005 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 420890003006 Walker A motif; other site 420890003007 ATP binding site [chemical binding]; other site 420890003008 Walker B motif; other site 420890003009 arginine finger; other site 420890003010 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 420890003011 Walker A motif; other site 420890003012 ATP binding site [chemical binding]; other site 420890003013 Walker B motif; other site 420890003014 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 420890003015 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 420890003016 active site 420890003017 multimer interface [polypeptide binding]; other site 420890003018 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 420890003019 Major Facilitator Superfamily; Region: MFS_1; pfam07690 420890003020 putative substrate translocation pore; other site 420890003021 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 420890003022 S-adenosylmethionine binding site [chemical binding]; other site 420890003023 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 420890003024 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cl00148 420890003025 Uncharacterized conserved protein [Function unknown]; Region: COG2013 420890003026 manganese transport protein MntH; Reviewed; Region: PRK00701 420890003027 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 420890003028 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 420890003029 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 420890003030 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 420890003031 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 420890003032 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 420890003033 DNA-binding site [nucleotide binding]; DNA binding site 420890003034 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 420890003035 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 420890003036 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 420890003037 alpha-mannosidase; Provisional; Region: PRK09819 420890003038 N-terminal catalytic domain of Escherichia coli alpha-mannosidase MngB and its bacterial homologs; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_EcMngB_like; cd10815 420890003039 active site 420890003040 metal binding site [ion binding]; metal-binding site 420890003041 catalytic site [active] 420890003042 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; cl08536 420890003043 Uncharacterized conserved protein [Function unknown]; Region: COG3538 420890003044 Protein of unknown function (DUF1237); Region: DUF1237; pfam06824 420890003045 Endo-beta-N-acetylglucosaminidases are bacterial chitinases that hydrolyze the chitin core of various asparagine (N)-linked glycans and glycoproteins. The endo-beta-N-acetylglucosaminidases have a glycosyl hydrolase family 18 (GH18) catalytic domain; Region: GH18_EndoS-like; cd06542 420890003046 active site 420890003047 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 420890003048 beta-galactosidase; Region: BGL; TIGR03356 420890003049 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 420890003050 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 420890003051 nucleotide binding site [chemical binding]; other site 420890003052 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 420890003053 active site residue [active] 420890003054 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 420890003055 active site residue [active] 420890003056 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 420890003057 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 420890003058 putative substrate translocation pore; other site 420890003059 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 420890003060 ArsC family; Region: ArsC; pfam03960 420890003061 putative catalytic residues [active] 420890003062 thiol/disulfide switch; other site 420890003063 L-lactate oxidase; Region: L_lactate_ox; TIGR02708 420890003064 L-Lactate oxidase (LOX) FMN-binding domain. LOX is a member of the family of FMN-containing alpha-hydroxyacid oxidases and catalyzes the oxidation of l-lactate using molecular oxygen to generate pyruvate and H2O2. This family occurs in both prokaryotes...; Region: LOX_like_FMN; cd04737 420890003065 teramer interface [polypeptide binding]; other site 420890003066 active site 420890003067 FMN binding site [chemical binding]; other site 420890003068 catalytic residues [active] 420890003069 pyruvate oxidase; Region: pyruv_oxi_spxB; TIGR02720 420890003070 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 420890003071 PYR/PP interface [polypeptide binding]; other site 420890003072 dimer interface [polypeptide binding]; other site 420890003073 tetramer interface [polypeptide binding]; other site 420890003074 TPP binding site [chemical binding]; other site 420890003075 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 420890003076 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 420890003077 TPP-binding site [chemical binding]; other site 420890003078 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 420890003079 Predicted acetyltransferase [General function prediction only]; Region: COG2388 420890003080 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 420890003081 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 420890003082 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 420890003083 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 420890003084 Transcriptional regulators [Transcription]; Region: PurR; COG1609 420890003085 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 420890003086 DNA binding site [nucleotide binding] 420890003087 domain linker motif; other site 420890003088 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 420890003089 dimerization interface [polypeptide binding]; other site 420890003090 ligand binding site [chemical binding]; other site 420890003091 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 420890003092 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 420890003093 substrate binding site [chemical binding]; other site 420890003094 dimer interface [polypeptide binding]; other site 420890003095 ATP binding site [chemical binding]; other site 420890003096 D-ribose pyranase; Provisional; Region: PRK11797 420890003097 Sugar transport protein; Region: Sugar_transport; pfam06800 420890003098 GTPase RsgA; Reviewed; Region: PRK01889 420890003099 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 420890003100 RNA binding site [nucleotide binding]; other site 420890003101 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 420890003102 GTPase/Zn-binding domain interface [polypeptide binding]; other site 420890003103 GTP/Mg2+ binding site [chemical binding]; other site 420890003104 G4 box; other site 420890003105 G5 box; other site 420890003106 G1 box; other site 420890003107 Switch I region; other site 420890003108 G2 box; other site 420890003109 G3 box; other site 420890003110 Switch II region; other site 420890003111 putative transposase OrfB; Reviewed; Region: PHA02517 420890003112 HTH-like domain; Region: HTH_21; pfam13276 420890003113 Integrase core domain; Region: rve; pfam00665 420890003114 Integrase core domain; Region: rve_3; pfam13683 420890003115 Transposase; Region: HTH_Tnp_1; pfam01527 420890003116 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 420890003117 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cl00290 420890003118 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 420890003119 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 420890003120 metal binding site [ion binding]; metal-binding site 420890003121 active site 420890003122 I-site; other site 420890003123 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 420890003124 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 420890003125 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 420890003126 Kinase/pyrophosphorylase; Region: Kinase-PPPase; pfam03618 420890003127 HTH domain; Region: HTH_11; pfam08279 420890003128 FOG: CBS domain [General function prediction only]; Region: COG0517 420890003129 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 420890003130 pyruvate phosphate dikinase; Provisional; Region: PRK09279 420890003131 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 420890003132 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 420890003133 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 420890003134 phosphate-starvation-inducible protein PsiE; Provisional; Region: PRK02833 420890003135 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 420890003136 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 420890003137 active site 420890003138 DNA polymerase IV; Reviewed; Region: PRK03103 420890003139 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 420890003140 active site 420890003141 DNA binding site [nucleotide binding] 420890003142 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 420890003143 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 420890003144 active site 420890003145 DNA binding site [nucleotide binding] 420890003146 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 420890003147 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 420890003148 GTP/Mg2+ binding site [chemical binding]; other site 420890003149 G4 box; other site 420890003150 G5 box; other site 420890003151 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 420890003152 G1 box; other site 420890003153 Switch I region; other site 420890003154 G2 box; other site 420890003155 G3 box; other site 420890003156 Switch II region; other site 420890003157 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 420890003158 RNA/DNA hybrid binding site [nucleotide binding]; other site 420890003159 active site 420890003160 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 420890003161 Mechanosensitive ion channel; Region: MS_channel; pfam00924 420890003162 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 420890003163 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 420890003164 homodimer interface [polypeptide binding]; other site 420890003165 substrate-cofactor binding pocket; other site 420890003166 catalytic residue [active] 420890003167 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3763 420890003168 glutamate racemase; Provisional; Region: PRK00865 420890003169 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 420890003170 active site 420890003171 dimerization interface [polypeptide binding]; other site 420890003172 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 420890003173 active site 420890003174 metal binding site [ion binding]; metal-binding site 420890003175 homotetramer interface [polypeptide binding]; other site 420890003176 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 420890003177 FOG: CBS domain [General function prediction only]; Region: COG0517 420890003178 site-specific tyrosine recombinase XerD-like protein; Reviewed; Region: xerD; PRK02436 420890003179 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 420890003180 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 420890003181 active site 420890003182 catalytic residues [active] 420890003183 DNA binding site [nucleotide binding] 420890003184 Int/Topo IB signature motif; other site 420890003185 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 420890003186 segregation and condensation protein B; Reviewed; Region: scpB; PRK00135 420890003187 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 420890003188 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 420890003189 RNA binding surface [nucleotide binding]; other site 420890003190 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 420890003191 active site 420890003192 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 420890003193 active site 420890003194 xanthine permease; Region: pbuX; TIGR03173 420890003195 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 420890003196 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 420890003197 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 420890003198 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 420890003199 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 420890003200 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 420890003201 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 420890003202 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 420890003203 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 420890003204 folate binding site [chemical binding]; other site 420890003205 NADP+ binding site [chemical binding]; other site 420890003206 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 420890003207 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 420890003208 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 420890003209 Walker A motif; other site 420890003210 ATP binding site [chemical binding]; other site 420890003211 Walker B motif; other site 420890003212 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 420890003213 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 420890003214 G1 box; other site 420890003215 GTP/Mg2+ binding site [chemical binding]; other site 420890003216 Switch I region; other site 420890003217 G2 box; other site 420890003218 G3 box; other site 420890003219 Switch II region; other site 420890003220 G4 box; other site 420890003221 G5 box; other site 420890003222 Dihydroneopterin aldolase [Coenzyme metabolism]; Region: FolB; COG1539 420890003223 active site 420890003224 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 420890003225 catalytic center binding site [active] 420890003226 ATP binding site [chemical binding]; other site 420890003227 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 420890003228 GTP cyclohydrolase I; Provisional; Region: PLN03044 420890003229 active site 420890003230 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 420890003231 dihydropteroate synthase; Region: DHPS; TIGR01496 420890003232 substrate binding pocket [chemical binding]; other site 420890003233 dimer interface [polypeptide binding]; other site 420890003234 inhibitor binding site; inhibition site 420890003235 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 420890003236 nudix motif; other site 420890003237 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 420890003238 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 420890003239 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 420890003240 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 420890003241 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 420890003242 Substrate-binding site [chemical binding]; other site 420890003243 Substrate specificity [chemical binding]; other site 420890003244 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 420890003245 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 420890003246 glutaminase active site [active] 420890003247 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 420890003248 dimer interface [polypeptide binding]; other site 420890003249 active site 420890003250 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 420890003251 dimer interface [polypeptide binding]; other site 420890003252 active site 420890003253 hypothetical protein; Reviewed; Region: PRK00024 420890003254 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 420890003255 helix-hairpin-helix signature motif; other site 420890003256 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 420890003257 MPN+ (JAMM) motif; other site 420890003258 Zinc-binding site [ion binding]; other site 420890003259 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 420890003260 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 420890003261 CoA binding domain; Region: CoA_binding; pfam02629 420890003262 Transcriptional regulator [Transcription]; Region: LysR; COG0583 420890003263 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 420890003264 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 420890003265 dimerization interface [polypeptide binding]; other site 420890003266 malate dehydrogenase; Provisional; Region: PRK13529 420890003267 Malic enzyme, N-terminal domain; Region: malic; pfam00390 420890003268 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 420890003269 NAD(P) binding site [chemical binding]; other site 420890003270 2-hydroxycarboxylate transporter family; Region: 2HCT; cl01386 420890003271 methionine sulfoxide reductase B; Provisional; Region: PRK00222 420890003272 SelR domain; Region: SelR; pfam01641 420890003273 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 420890003274 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 420890003275 active site 420890003276 catalytic tetrad [active] 420890003277 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 420890003278 DnaD and phage-associated domain; Region: DnaD_dom; TIGR01446 420890003279 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 420890003280 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 420890003281 minor groove reading motif; other site 420890003282 helix-hairpin-helix signature motif; other site 420890003283 substrate binding pocket [chemical binding]; other site 420890003284 active site 420890003285 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 420890003286 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 420890003287 Family of unknown function (DUF633); Region: DUF633; pfam04816 420890003288 Uncharacterized conserved protein [Function unknown]; Region: COG0327 420890003289 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 420890003290 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 420890003291 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 420890003292 active site 420890003293 motif I; other site 420890003294 motif II; other site 420890003295 TRAM domain; Region: TRAM; pfam01938 420890003296 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 420890003297 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 420890003298 S-adenosylmethionine binding site [chemical binding]; other site 420890003299 Methyltransferase domain; Region: Methyltransf_31; pfam13847 420890003300 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 420890003301 S-adenosylmethionine binding site [chemical binding]; other site 420890003302 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 420890003303 Domain of unknown function DUF20; Region: UPF0118; pfam01594 420890003304 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 420890003305 binding surface 420890003306 TPR motif; other site 420890003307 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 420890003308 binding surface 420890003309 TPR motif; other site 420890003310 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 420890003311 binding surface 420890003312 TPR motif; other site 420890003313 acetolactate synthase; Reviewed; Region: PRK08617 420890003314 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 420890003315 PYR/PP interface [polypeptide binding]; other site 420890003316 dimer interface [polypeptide binding]; other site 420890003317 TPP binding site [chemical binding]; other site 420890003318 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 420890003319 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 420890003320 TPP-binding site [chemical binding]; other site 420890003321 potential frameshift: common BLAST hit: gi|331265789|ref|YP_004325419.1| superfamily I DNA and RNA helicases and helicase subunits 420890003322 Part of AAA domain; Region: AAA_19; pfam13245 420890003323 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 420890003324 AAA domain; Region: AAA_12; pfam13087 420890003325 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 420890003326 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 420890003327 putative active site [active] 420890003328 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 420890003329 Chitin binding domain; Region: Chitin_bind_3; pfam03067 420890003330 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 420890003331 Glycosyl hydrolases family 18; Region: Glyco_hydro_18; pfam00704 420890003332 putative active site [active] 420890003333 Uncharacterized protein contain chitin-binding domain type 3 [General function prediction only]; Region: COG3979 420890003334 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 420890003335 Interdomain contacts; other site 420890003336 Cytokine receptor motif; other site 420890003337 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 420890003338 aromatic chitin/cellulose binding site residues [chemical binding]; other site 420890003339 TspO/MBR family; Region: TspO_MBR; pfam03073 420890003340 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 420890003341 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 420890003342 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 420890003343 active site turn [active] 420890003344 phosphorylation site [posttranslational modification] 420890003345 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 420890003346 HPr interaction site; other site 420890003347 glycerol kinase (GK) interaction site [polypeptide binding]; other site 420890003348 active site 420890003349 phosphorylation site [posttranslational modification] 420890003350 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 420890003351 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 420890003352 Soluble P-type ATPase [General function prediction only]; Region: COG4087 420890003353 Predicted transcriptional regulators [Transcription]; Region: COG1695 420890003354 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 420890003355 Protein of unknown function (DUF1700); Region: DUF1700; pfam08006 420890003356 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 420890003357 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 420890003358 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 420890003359 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 420890003360 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4918 420890003361 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK07251 420890003362 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 420890003363 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 420890003364 cystathionine gamma-synthase/cystathionine beta-lyase; Validated; Region: PRK06176 420890003365 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 420890003366 homodimer interface [polypeptide binding]; other site 420890003367 substrate-cofactor binding pocket; other site 420890003368 pyridoxal 5'-phosphate binding site [chemical binding]; other site 420890003369 catalytic residue [active] 420890003370 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 420890003371 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 420890003372 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 420890003373 active site 420890003374 peroxiredoxin; Region: AhpC; TIGR03137 420890003375 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 420890003376 dimer interface [polypeptide binding]; other site 420890003377 decamer (pentamer of dimers) interface [polypeptide binding]; other site 420890003378 catalytic triad [active] 420890003379 peroxidatic and resolving cysteines [active] 420890003380 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 420890003381 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 420890003382 catalytic residue [active] 420890003383 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 420890003384 catalytic residues [active] 420890003385 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 420890003386 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 420890003387 Acyl carrier protein phosphodiesterase [Lipid metabolism]; Region: AcpD; COG1182 420890003388 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 420890003389 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 420890003390 30S subunit binding site; other site 420890003391 Domain of unknown function (DUF368); Region: DUF368; cl00893 420890003392 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 420890003393 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 420890003394 DNA-binding site [nucleotide binding]; DNA binding site 420890003395 Putative regulatory, ligand-binding protein related to C-terminal domains of K+ channels [Inorganic ion transport and metabolism]; Region: COG0490 420890003396 TrkA-C domain; Region: TrkA_C; pfam02080 420890003397 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 420890003398 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 420890003399 Walker A/P-loop; other site 420890003400 ATP binding site [chemical binding]; other site 420890003401 Q-loop/lid; other site 420890003402 ABC transporter signature motif; other site 420890003403 Walker B; other site 420890003404 D-loop; other site 420890003405 H-loop/switch region; other site 420890003406 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 420890003407 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 420890003408 dimer interface [polypeptide binding]; other site 420890003409 conserved gate region; other site 420890003410 putative PBP binding loops; other site 420890003411 ABC-ATPase subunit interface; other site 420890003412 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 420890003413 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 420890003414 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 420890003415 DNA protecting protein DprA; Region: dprA; TIGR00732 420890003416 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 420890003417 DNA topoisomerase I; Validated; Region: PRK05582 420890003418 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 420890003419 active site 420890003420 interdomain interaction site; other site 420890003421 putative metal-binding site [ion binding]; other site 420890003422 nucleotide binding site [chemical binding]; other site 420890003423 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 420890003424 domain I; other site 420890003425 DNA binding groove [nucleotide binding] 420890003426 phosphate binding site [ion binding]; other site 420890003427 domain II; other site 420890003428 domain III; other site 420890003429 nucleotide binding site [chemical binding]; other site 420890003430 catalytic site [active] 420890003431 domain IV; other site 420890003432 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 420890003433 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 420890003434 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 420890003435 Glucose inhibited division protein A; Region: GIDA; pfam01134 420890003436 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 420890003437 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 420890003438 active site 420890003439 DNA binding site [nucleotide binding] 420890003440 Int/Topo IB signature motif; other site 420890003441 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 420890003442 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 420890003443 NAD(P) binding site [chemical binding]; other site 420890003444 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 420890003445 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 420890003446 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 420890003447 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 420890003448 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 420890003449 DNA binding residues [nucleotide binding] 420890003450 putative dimer interface [polypeptide binding]; other site 420890003451 asparagine synthetase AsnA; Provisional; Region: PRK05425 420890003452 motif 1; other site 420890003453 dimer interface [polypeptide binding]; other site 420890003454 active site 420890003455 motif 2; other site 420890003456 motif 3; other site 420890003457 DltD N-terminal region; Region: DltD_N; pfam04915 420890003458 DltD central region; Region: DltD_M; pfam04918 420890003459 D-alanine--poly(phosphoribitol) ligase subunit 2; Validated; Region: PRK05087 420890003460 D-alanyl-lipoteichoic acid biosynthesis protein DltB; Region: LTA_dltB; TIGR04091 420890003461 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 420890003462 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 420890003463 acyl-activating enzyme (AAE) consensus motif; other site 420890003464 AMP binding site [chemical binding]; other site 420890003465 Uncharacterized protein with an alpha/beta hydrolase fold [General function prediction only]; Region: COG4814 420890003466 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 420890003467 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 420890003468 putative catalytic cysteine [active] 420890003469 Glutamate 5-kinase [Amino acid transport and metabolism]; Region: ProB; COG0263 420890003470 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 420890003471 nucleotide binding site [chemical binding]; other site 420890003472 homotetrameric interface [polypeptide binding]; other site 420890003473 putative phosphate binding site [ion binding]; other site 420890003474 putative allosteric binding site; other site 420890003475 Transposase; Region: HTH_Tnp_1; pfam01527 420890003476 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 420890003477 putative transposase OrfB; Reviewed; Region: PHA02517 420890003478 HTH-like domain; Region: HTH_21; pfam13276 420890003479 Integrase core domain; Region: rve; pfam00665 420890003480 Integrase core domain; Region: rve_3; pfam13683 420890003481 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 420890003482 potential frameshift: common BLAST hit: gi|347521677|ref|YP_004779248.1| preprotein translocase SecA 420890003483 accessory Sec system translocase SecA2; Region: secA2; TIGR03714 420890003484 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 420890003485 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 420890003486 nucleotide binding region [chemical binding]; other site 420890003487 ATP-binding site [chemical binding]; other site 420890003488 SecA DEAD-like domain; Region: SecA_DEAD; pfam07517 420890003489 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 420890003490 Ligand Binding Site [chemical binding]; other site 420890003491 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 420890003492 Ligand Binding Site [chemical binding]; other site 420890003493 Protein of unknown function (DUF1398); Region: DUF1398; cl11576 420890003494 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 420890003495 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 420890003496 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5294 420890003497 Protein of unknown function (DUF1093); Region: DUF1093; cl02185 420890003498 Protein of unknown function (DUF1440); Region: DUF1440; pfam07274 420890003499 CHAP domain; Region: CHAP; cl17642 420890003500 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 420890003501 Int/Topo IB signature motif; other site 420890003502 CHAP domain; Region: CHAP; cl17642 420890003503 Haemolysin XhlA; Region: XhlA; pfam10779 420890003504 gp58-like protein; Region: Gp58; pfam07902 420890003505 Phage-related protein [Function unknown]; Region: COG5412 420890003506 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 420890003507 N-acetyl-D-glucosamine binding site [chemical binding]; other site 420890003508 catalytic residue [active] 420890003509 Phage tail protein; Region: Phage_tail_3; pfam08813 420890003510 Head-Tail Connector Protein gp15 of Bacteriophage SPP1 and similar proteins; Region: gp15; cd08055 420890003511 Phage capsid family; Region: Phage_capsid; pfam05065 420890003512 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 420890003513 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 420890003514 Domain of unknown function (DUF4355); Region: DUF4355; pfam14265 420890003515 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 420890003516 hypothetical protein; Provisional; Region: PRK14553 420890003517 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 420890003518 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 420890003519 Phage terminase large subunit; Region: Terminase_3; cl12054 420890003520 Terminase small subunit; Region: Terminase_2; pfam03592 420890003521 Protein of unknown function (DUF722); Region: DUF722; pfam05263 420890003522 Prophage protein (DUF1660); Region: DUF1660; pfam07874 420890003523 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 420890003524 non-specific DNA binding site [nucleotide binding]; other site 420890003525 salt bridge; other site 420890003526 sequence-specific DNA binding site [nucleotide binding]; other site 420890003527 Protein of unknown function (DUF1642); Region: DUF1642; pfam07852 420890003528 Endodeoxyribonuclease RusA; Region: RusA; cl01885 420890003529 Helix-turn-helix domain; Region: HTH_36; pfam13730 420890003530 HNH endonuclease; Region: HNH_3; pfam13392 420890003531 phage nucleotide-binding protein; Region: phage_P_loop; TIGR01618 420890003532 AAA domain; Region: AAA_24; pfam13479 420890003533 Siphovirus Gp157; Region: Sipho_Gp157; pfam05565 420890003534 Phage anti-repressor protein [Transcription]; Region: COG3561 420890003535 ORF6C domain; Region: ORF6C; pfam10552 420890003536 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 420890003537 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 420890003538 non-specific DNA binding site [nucleotide binding]; other site 420890003539 salt bridge; other site 420890003540 sequence-specific DNA binding site [nucleotide binding]; other site 420890003541 Lactococcus bacteriophage repressor; Region: Lac_bphage_repr; pfam06543 420890003542 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 420890003543 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 420890003544 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 420890003545 Int/Topo IB signature motif; other site 420890003546 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 420890003547 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 420890003548 Walker A/P-loop; other site 420890003549 ATP binding site [chemical binding]; other site 420890003550 Q-loop/lid; other site 420890003551 ABC transporter signature motif; other site 420890003552 Walker B; other site 420890003553 D-loop; other site 420890003554 H-loop/switch region; other site 420890003555 putative DNA-binding protein; Validated; Region: PRK00118 420890003556 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 420890003557 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 420890003558 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 420890003559 active site 420890003560 phosphorylation site [posttranslational modification] 420890003561 intermolecular recognition site; other site 420890003562 dimerization interface [polypeptide binding]; other site 420890003563 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 420890003564 DNA binding site [nucleotide binding] 420890003565 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 420890003566 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 420890003567 dimer interface [polypeptide binding]; other site 420890003568 phosphorylation site [posttranslational modification] 420890003569 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 420890003570 ATP binding site [chemical binding]; other site 420890003571 Mg2+ binding site [ion binding]; other site 420890003572 G-X-G motif; other site 420890003573 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 420890003574 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 420890003575 DNA-binding site [nucleotide binding]; DNA binding site 420890003576 UTRA domain; Region: UTRA; pfam07702 420890003577 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 420890003578 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 420890003579 ligand binding site [chemical binding]; other site 420890003580 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 420890003581 active site 420890003582 catalytic motif [active] 420890003583 Zn binding site [ion binding]; other site 420890003584 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 420890003585 intersubunit interface [polypeptide binding]; other site 420890003586 active site 420890003587 catalytic residue [active] 420890003588 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 420890003589 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 420890003590 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 420890003591 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 420890003592 Methyltransferase domain; Region: Methyltransf_31; pfam13847 420890003593 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 420890003594 S-adenosylmethionine binding site [chemical binding]; other site 420890003595 pantothenate kinase; Provisional; Region: PRK05439 420890003596 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 420890003597 ATP-binding site [chemical binding]; other site 420890003598 CoA-binding site [chemical binding]; other site 420890003599 Mg2+-binding site [ion binding]; other site 420890003600 GMP synthase; Reviewed; Region: guaA; PRK00074 420890003601 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 420890003602 AMP/PPi binding site [chemical binding]; other site 420890003603 candidate oxyanion hole; other site 420890003604 catalytic triad [active] 420890003605 potential glutamine specificity residues [chemical binding]; other site 420890003606 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 420890003607 ATP Binding subdomain [chemical binding]; other site 420890003608 Dimerization subdomain; other site 420890003609 Protein of unknown function (DUF1093); Region: DUF1093; cl02185 420890003610 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 420890003611 Ligand Binding Site [chemical binding]; other site 420890003612 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 420890003613 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 420890003614 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 420890003615 Zn binding site [ion binding]; other site 420890003616 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 420890003617 Zn binding site [ion binding]; other site 420890003618 Protein of unknown function (DUF1237); Region: DUF1237; pfam06824 420890003619 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 420890003620 ATP-grasp domain; Region: ATP-grasp; pfam02222 420890003621 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 420890003622 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 420890003623 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 420890003624 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 420890003625 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 420890003626 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 420890003627 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 420890003628 motif II; other site 420890003629 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 420890003630 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 420890003631 Ca binding site [ion binding]; other site 420890003632 active site 420890003633 catalytic site [active] 420890003634 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 420890003635 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 420890003636 active site turn [active] 420890003637 phosphorylation site [posttranslational modification] 420890003638 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 420890003639 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 420890003640 HPr interaction site; other site 420890003641 glycerol kinase (GK) interaction site [polypeptide binding]; other site 420890003642 active site 420890003643 phosphorylation site [posttranslational modification] 420890003644 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 420890003645 DNA-binding site [nucleotide binding]; DNA binding site 420890003646 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 420890003647 UTRA domain; Region: UTRA; pfam07702 420890003648 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 420890003649 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 420890003650 purine monophosphate binding site [chemical binding]; other site 420890003651 dimer interface [polypeptide binding]; other site 420890003652 putative catalytic residues [active] 420890003653 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 420890003654 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 420890003655 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 420890003656 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 420890003657 active site 420890003658 substrate binding site [chemical binding]; other site 420890003659 cosubstrate binding site; other site 420890003660 catalytic site [active] 420890003661 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 420890003662 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 420890003663 dimerization interface [polypeptide binding]; other site 420890003664 putative ATP binding site [chemical binding]; other site 420890003665 amidophosphoribosyltransferase; Provisional; Region: PRK07272 420890003666 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 420890003667 active site 420890003668 tetramer interface [polypeptide binding]; other site 420890003669 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 420890003670 active site 420890003671 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 420890003672 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 420890003673 dimerization interface [polypeptide binding]; other site 420890003674 ATP binding site [chemical binding]; other site 420890003675 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 420890003676 dimerization interface [polypeptide binding]; other site 420890003677 ATP binding site [chemical binding]; other site 420890003678 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 420890003679 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 420890003680 putative active site [active] 420890003681 catalytic triad [active] 420890003682 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 420890003683 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 420890003684 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 420890003685 ATP binding site [chemical binding]; other site 420890003686 active site 420890003687 substrate binding site [chemical binding]; other site 420890003688 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 420890003689 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 420890003690 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 420890003691 Coenzyme A binding pocket [chemical binding]; other site 420890003692 thymidylate synthase; Reviewed; Region: thyA; PRK01827 420890003693 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 420890003694 dimerization interface [polypeptide binding]; other site 420890003695 active site 420890003696 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 420890003697 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 420890003698 ABC transporter; Region: ABC_tran_2; pfam12848 420890003699 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 420890003700 Membrane domain of glycerophosphoryl diester phosphodiesterase; Region: GPDPase_memb; pfam10110 420890003701 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 420890003702 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 420890003703 putative active site [active] 420890003704 catalytic site [active] 420890003705 putative metal binding site [ion binding]; other site 420890003706 Peptidase family C69; Region: Peptidase_C69; pfam03577 420890003707 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 420890003708 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 420890003709 active site 420890003710 NTP binding site [chemical binding]; other site 420890003711 metal binding triad [ion binding]; metal-binding site 420890003712 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 420890003713 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 420890003714 hypothetical protein; Provisional; Region: PRK07205 420890003715 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 420890003716 active site 420890003717 metal binding site [ion binding]; metal-binding site 420890003718 Predicted membrane protein [Function unknown]; Region: COG1288 420890003719 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 420890003720 EDD domain protein, DegV family; Region: DegV; TIGR00762 420890003721 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 420890003722 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4835 420890003723 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 420890003724 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 420890003725 motif II; other site 420890003726 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 420890003727 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 420890003728 RimM N-terminal domain; Region: RimM; pfam01782 420890003729 PRC-barrel domain; Region: PRC; pfam05239 420890003730 amino acid transporter; Region: 2A0306; TIGR00909 420890003731 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 420890003732 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 420890003733 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 420890003734 Protein of unknown function (DUF3290); Region: DUF3290; pfam11694 420890003735 Predicted membrane protein [Function unknown]; Region: COG2323 420890003736 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 420890003737 S-adenosylmethionine binding site [chemical binding]; other site 420890003738 Predicted membrane protein [Function unknown]; Region: COG2261 420890003739 N(5)-(carboxyethyl)ornithine synthase; Region: ceo_syn; cd12181 420890003740 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 420890003741 putative active site [active] 420890003742 putative ligand binding site [chemical binding]; other site 420890003743 putative NAD(P) binding site [chemical binding]; other site 420890003744 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 420890003745 Small integral membrane protein (DUF2273); Region: DUF2273; cl11575 420890003746 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 420890003747 potential frameshift: common BLAST hit: gi|281490773|ref|YP_003352753.1| CorA family Mg2+/Co2+ transporter 420890003748 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 420890003749 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 420890003750 oligomer interface [polypeptide binding]; other site 420890003751 fumarate reductase flavoprotein subunit; Validated; Region: PRK06481 420890003752 L-aspartate oxidase; Provisional; Region: PRK06175 420890003753 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 420890003754 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 420890003755 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 420890003756 Domain of unknown function DUF21; Region: DUF21; pfam01595 420890003757 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 420890003758 Transporter associated domain; Region: CorC_HlyC; pfam03471 420890003759 Predicted transcriptional regulators [Transcription]; Region: COG1695 420890003760 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 420890003761 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 420890003762 Phenolic acid decarboxylase (PAD); Region: PA_decarbox; cl01382 420890003763 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 420890003764 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 420890003765 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 420890003766 ArsC family; Region: ArsC; pfam03960 420890003767 putative catalytic residues [active] 420890003768 thiol/disulfide switch; other site 420890003769 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 420890003770 KH domain; Region: KH_4; pfam13083 420890003771 Ribosomal protein S16 [Translation, ribosomal structure and biogenesis]; Region: RpsP; COG0228 420890003772 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 420890003773 homodimer interface [polypeptide binding]; other site 420890003774 catalytic residues [active] 420890003775 NAD binding site [chemical binding]; other site 420890003776 substrate binding pocket [chemical binding]; other site 420890003777 flexible flap; other site 420890003778 putative acyltransferase; Provisional; Region: PRK05790 420890003779 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 420890003780 dimer interface [polypeptide binding]; other site 420890003781 active site 420890003782 "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 420890003783 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 420890003784 dimer interface [polypeptide binding]; other site 420890003785 active site 420890003786 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 420890003787 classical (c) SDRs; Region: SDR_c; cd05233 420890003788 NAD(P) binding site [chemical binding]; other site 420890003789 active site 420890003790 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 420890003791 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 420890003792 DNA-binding site [nucleotide binding]; DNA binding site 420890003793 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 420890003794 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 420890003795 putative oxidoreductase; Provisional; Region: PRK10206 420890003796 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 420890003797 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 420890003798 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 420890003799 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 420890003800 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 420890003801 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 420890003802 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 420890003803 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 420890003804 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 420890003805 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 420890003806 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 420890003807 glycerol kinase; Provisional; Region: glpK; PRK00047 420890003808 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 420890003809 N- and C-terminal domain interface [polypeptide binding]; other site 420890003810 active site 420890003811 MgATP binding site [chemical binding]; other site 420890003812 catalytic site [active] 420890003813 metal binding site [ion binding]; metal-binding site 420890003814 glycerol binding site [chemical binding]; other site 420890003815 homotetramer interface [polypeptide binding]; other site 420890003816 homodimer interface [polypeptide binding]; other site 420890003817 FBP binding site [chemical binding]; other site 420890003818 protein IIAGlc interface [polypeptide binding]; other site 420890003819 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 420890003820 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 420890003821 active site 420890003822 trimer interface [polypeptide binding]; other site 420890003823 allosteric site; other site 420890003824 active site lid [active] 420890003825 Transcriptional regulator [Transcription]; Region: LytR; COG1316 420890003826 Exopolysaccharide biosynthesis protein related to N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: EpsL; COG4632 420890003827 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 420890003828 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 420890003829 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 420890003830 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 420890003831 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 420890003832 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 420890003833 active site 420890003834 nucleotide binding site [chemical binding]; other site 420890003835 HIGH motif; other site 420890003836 KMSKS motif; other site 420890003837 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 420890003838 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 420890003839 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 420890003840 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 420890003841 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 420890003842 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 420890003843 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 420890003844 Walker A/P-loop; other site 420890003845 ATP binding site [chemical binding]; other site 420890003846 Q-loop/lid; other site 420890003847 ABC transporter signature motif; other site 420890003848 Walker B; other site 420890003849 D-loop; other site 420890003850 H-loop/switch region; other site 420890003851 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 420890003852 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 420890003853 non-specific DNA binding site [nucleotide binding]; other site 420890003854 salt bridge; other site 420890003855 sequence-specific DNA binding site [nucleotide binding]; other site 420890003856 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 420890003857 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 420890003858 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 420890003859 ArsC family; Region: ArsC; pfam03960 420890003860 BioY family; Region: BioY; pfam02632 420890003861 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 420890003862 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 420890003863 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 420890003864 catalytic site [active] 420890003865 subunit interface [polypeptide binding]; other site 420890003866 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 420890003867 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 420890003868 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 420890003869 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 420890003870 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 420890003871 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 420890003872 active site 420890003873 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 420890003874 GntP family permease; Region: GntP_permease; pfam02447 420890003875 fructuronate transporter; Provisional; Region: PRK10034; cl15264 420890003876 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 420890003877 Gluconate kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 420890003878 N- and C-terminal domain interface [polypeptide binding]; other site 420890003879 active site 420890003880 catalytic site [active] 420890003881 metal binding site [ion binding]; metal-binding site 420890003882 carbohydrate binding site [chemical binding]; other site 420890003883 ATP binding site [chemical binding]; other site 420890003884 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 420890003885 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 420890003886 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 420890003887 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 420890003888 Ca binding site [ion binding]; other site 420890003889 active site 420890003890 catalytic site [active] 420890003891 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 420890003892 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 420890003893 RNA binding site [nucleotide binding]; other site 420890003894 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 420890003895 RNA binding site [nucleotide binding]; other site 420890003896 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 420890003897 RNA binding site [nucleotide binding]; other site 420890003898 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 420890003899 RNA binding site [nucleotide binding]; other site 420890003900 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 420890003901 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 420890003902 Galactose-1-phosphate uridylyltransferase [Energy production and conversion]; Region: GalT; COG1085 420890003903 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 420890003904 nucleotide binding site/active site [active] 420890003905 HIT family signature motif; other site 420890003906 catalytic residue [active] 420890003907 Predicted membrane protein [Function unknown]; Region: COG4485 420890003908 Transposase; Region: HTH_Tnp_1; pfam01527 420890003909 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 420890003910 putative transposase OrfB; Reviewed; Region: PHA02517 420890003911 HTH-like domain; Region: HTH_21; pfam13276 420890003912 Integrase core domain; Region: rve; pfam00665 420890003913 Integrase core domain; Region: rve_3; pfam13683 420890003914 Protein of unknown function (DUF1093); Region: DUF1093; cl02185 420890003915 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5294 420890003916 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 420890003917 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 420890003918 Mg2+ binding site [ion binding]; other site 420890003919 G-X-G motif; other site 420890003920 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 420890003921 anchoring element; other site 420890003922 dimer interface [polypeptide binding]; other site 420890003923 ATP binding site [chemical binding]; other site 420890003924 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 420890003925 active site 420890003926 putative metal-binding site [ion binding]; other site 420890003927 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 420890003928 Integral membrane protein (intg_mem_TP0381); Region: Intg_mem_TP0381; pfam09529 420890003929 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 420890003930 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 420890003931 motif II; other site 420890003932 Amidinotransferase; Region: Amidinotransf; cl12043 420890003933 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 420890003934 Uncharacterized conserved protein [Function unknown]; Region: COG1284 420890003935 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 420890003936 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; cl17626 420890003937 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 420890003938 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 420890003939 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 420890003940 active site 420890003941 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 420890003942 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 420890003943 FeS/SAM binding site; other site 420890003944 HemN C-terminal domain; Region: HemN_C; pfam06969 420890003945 aspartate 4-decarboxylase; Region: asp_4_decarbox; TIGR03801 420890003946 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 420890003947 pyridoxal 5'-phosphate binding site [chemical binding]; other site 420890003948 homodimer interface [polypeptide binding]; other site 420890003949 catalytic residue [active] 420890003950 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 420890003951 triosephosphate isomerase; Provisional; Region: PRK14565 420890003952 substrate binding site [chemical binding]; other site 420890003953 dimer interface [polypeptide binding]; other site 420890003954 catalytic triad [active] 420890003955 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 420890003956 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 420890003957 active site 420890003958 Riboflavin kinase; Region: Flavokinase; smart00904 420890003959 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK02484 420890003960 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 420890003961 RNA binding site [nucleotide binding]; other site 420890003962 active site 420890003963 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 420890003964 dimer interface [polypeptide binding]; other site 420890003965 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 420890003966 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 420890003967 H+ Antiporter protein; Region: 2A0121; TIGR00900 420890003968 putative substrate translocation pore; other site 420890003969 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 420890003970 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 420890003971 Part of AAA domain; Region: AAA_19; pfam13245 420890003972 Family description; Region: UvrD_C_2; pfam13538 420890003973 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 420890003974 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 420890003975 Walker A/P-loop; other site 420890003976 ATP binding site [chemical binding]; other site 420890003977 Q-loop/lid; other site 420890003978 ABC transporter signature motif; other site 420890003979 Walker B; other site 420890003980 D-loop; other site 420890003981 H-loop/switch region; other site 420890003982 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 420890003983 active site 420890003984 catalytic site [active] 420890003985 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 420890003986 ApbE family; Region: ApbE; pfam02424 420890003987 DNA gyrase subunit A; Validated; Region: PRK05560 420890003988 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 420890003989 CAP-like domain; other site 420890003990 active site 420890003991 primary dimer interface [polypeptide binding]; other site 420890003992 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 420890003993 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 420890003994 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 420890003995 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 420890003996 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 420890003997 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 420890003998 DNA topoisomerase IV, A subunit, Gram-positive; Region: parC_Gpos; TIGR01061 420890003999 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 420890004000 CAP-like domain; other site 420890004001 active site 420890004002 primary dimer interface [polypeptide binding]; other site 420890004003 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 420890004004 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 420890004005 Coenzyme A binding pocket [chemical binding]; other site 420890004006 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 420890004007 active site 420890004008 catalytic site [active] 420890004009 substrate binding site [chemical binding]; other site 420890004010 DNA topoisomerase IV, B subunit, Gram-positive; Region: parE_Gpos; TIGR01058 420890004011 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 420890004012 Mg2+ binding site [ion binding]; other site 420890004013 G-X-G motif; other site 420890004014 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 420890004015 anchoring element; other site 420890004016 dimer interface [polypeptide binding]; other site 420890004017 ATP binding site [chemical binding]; other site 420890004018 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 420890004019 active site 420890004020 putative metal-binding site [ion binding]; other site 420890004021 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 420890004022 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 420890004023 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 420890004024 catalytic residues [active] 420890004025 NrdI Flavodoxin like; Region: Flavodoxin_NdrI; cl17293 420890004026 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07306 420890004027 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 420890004028 Class I ribonucleotide reductase; Region: RNR_I; cd01679 420890004029 active site 420890004030 dimer interface [polypeptide binding]; other site 420890004031 catalytic residues [active] 420890004032 effector binding site; other site 420890004033 R2 peptide binding site; other site 420890004034 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 420890004035 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 420890004036 dimer interface [polypeptide binding]; other site 420890004037 putative radical transfer pathway; other site 420890004038 diiron center [ion binding]; other site 420890004039 tyrosyl radical; other site 420890004040 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 420890004041 HD domain; Region: HD_3; cl17350 420890004042 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 420890004043 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 420890004044 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 420890004045 Walker A/P-loop; other site 420890004046 ATP binding site [chemical binding]; other site 420890004047 Q-loop/lid; other site 420890004048 ABC transporter signature motif; other site 420890004049 Walker B; other site 420890004050 D-loop; other site 420890004051 H-loop/switch region; other site 420890004052 peptide chain release factor 2; Validated; Region: prfB; PRK00578 420890004053 This domain is found in peptide chain release factors; Region: PCRF; smart00937 420890004054 RF-1 domain; Region: RF-1; pfam00472 420890004055 epoxyqueuosine reductase; Region: TIGR00276 420890004056 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 420890004057 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 420890004058 Domain of unknown function (DUF814); Region: DUF814; pfam05670 420890004059 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 420890004060 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 420890004061 Walker A/P-loop; other site 420890004062 ATP binding site [chemical binding]; other site 420890004063 Q-loop/lid; other site 420890004064 ABC transporter signature motif; other site 420890004065 Walker B; other site 420890004066 D-loop; other site 420890004067 H-loop/switch region; other site 420890004068 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 420890004069 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 420890004070 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 420890004071 TM-ABC transporter signature motif; other site 420890004072 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 420890004073 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 420890004074 TM-ABC transporter signature motif; other site 420890004075 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 420890004076 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 420890004077 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 420890004078 tetramer (dimer of dimers) interface [polypeptide binding]; other site 420890004079 NAD binding site [chemical binding]; other site 420890004080 dimer interface [polypeptide binding]; other site 420890004081 substrate binding site [chemical binding]; other site 420890004082 pyruvate kinase; Provisional; Region: PRK05826 420890004083 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 420890004084 domain interfaces; other site 420890004085 active site 420890004086 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 420890004087 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 420890004088 active site 420890004089 ADP/pyrophosphate binding site [chemical binding]; other site 420890004090 dimerization interface [polypeptide binding]; other site 420890004091 allosteric effector site; other site 420890004092 fructose-1,6-bisphosphate binding site; other site 420890004093 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 420890004094 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 420890004095 active site 420890004096 dimer interface [polypeptide binding]; other site 420890004097 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 420890004098 5-bromo-4-chloroindolyl phosphate hydrolysis protein; Region: Halogen_Hydrol; cl02059 420890004099 Tim44-like domain; Region: Tim44; cl09208 420890004100 conserved hypothetical protein; Region: TIGR02328 420890004101 Pyrimidine dimer DNA glycosylase; Region: Pyr_excise; pfam03013 420890004102 Enterocin A Immunity; Region: EntA_Immun; pfam08951 420890004103 Predicted membrane protein [Function unknown]; Region: COG3326 420890004104 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 420890004105 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 420890004106 S-adenosylmethionine binding site [chemical binding]; other site 420890004107 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 420890004108 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 420890004109 Coenzyme A binding pocket [chemical binding]; other site 420890004110 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 420890004111 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 420890004112 Coenzyme A binding pocket [chemical binding]; other site 420890004113 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 420890004114 nucleoside/Zn binding site; other site 420890004115 dimer interface [polypeptide binding]; other site 420890004116 catalytic motif [active] 420890004117 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 420890004118 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 420890004119 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 420890004120 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 420890004121 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 420890004122 active site 420890004123 tetramer interface; other site 420890004124 Listerrria innocua Lin0431 is similar to the N-Utilization Substance G (NusG) N terminal (NGN) insert (DII); Region: Lin0431_like; cd09911 420890004125 trimer interface [polypeptide binding]; other site 420890004126 Predicted membrane protein [Function unknown]; Region: COG4769 420890004127 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 420890004128 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 420890004129 substrate binding pocket [chemical binding]; other site 420890004130 chain length determination region; other site 420890004131 substrate-Mg2+ binding site; other site 420890004132 catalytic residues [active] 420890004133 aspartate-rich region 1; other site 420890004134 active site lid residues [active] 420890004135 aspartate-rich region 2; other site 420890004136 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 420890004137 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 420890004138 S-adenosylmethionine binding site [chemical binding]; other site 420890004139 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 420890004140 active site 420890004141 dimer interface [polypeptide binding]; other site 420890004142 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 420890004143 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 420890004144 heterodimer interface [polypeptide binding]; other site 420890004145 active site 420890004146 FMN binding site [chemical binding]; other site 420890004147 homodimer interface [polypeptide binding]; other site 420890004148 substrate binding site [chemical binding]; other site 420890004149 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 420890004150 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 420890004151 FAD binding pocket [chemical binding]; other site 420890004152 FAD binding motif [chemical binding]; other site 420890004153 phosphate binding motif [ion binding]; other site 420890004154 beta-alpha-beta structure motif; other site 420890004155 NAD binding pocket [chemical binding]; other site 420890004156 Iron coordination center [ion binding]; other site 420890004157 Membrane protease subunit, stomatin/prohibitin family [Amino acid transport and metabolism]; Region: COG4260 420890004158 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 420890004159 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 420890004160 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 420890004161 Repair protein; Region: Repair_PSII; pfam04536 420890004162 Pseudouridine synthase, Escherichia coli RluE; Region: PseudoU_synth_RluE; cd02566 420890004163 pseudouridine synthase; Region: TIGR00093 420890004164 probable active site [active] 420890004165 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 420890004166 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 420890004167 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 420890004168 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 420890004169 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 420890004170 ATP-grasp domain; Region: ATP-grasp_4; cl17255 420890004171 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 420890004172 IMP binding site; other site 420890004173 dimer interface [polypeptide binding]; other site 420890004174 interdomain contacts; other site 420890004175 partial ornithine binding site; other site 420890004176 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 420890004177 ArsC family; Region: ArsC; pfam03960 420890004178 putative catalytic residues [active] 420890004179 thiol/disulfide switch; other site 420890004180 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 420890004181 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 420890004182 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 420890004183 Walker A/P-loop; other site 420890004184 ATP binding site [chemical binding]; other site 420890004185 Q-loop/lid; other site 420890004186 ABC transporter signature motif; other site 420890004187 Walker B; other site 420890004188 D-loop; other site 420890004189 H-loop/switch region; other site 420890004190 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 420890004191 potential frameshift: common BLAST hit: gi|125625261|ref|YP_001033744.1| secreted 45 kDa protein precursor 420890004192 CHAP domain; Region: CHAP; cl17642 420890004193 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 420890004194 Protein of unknown function (DUF3373); Region: DUF3373; pfam11853 420890004195 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 420890004196 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 420890004197 Uncharacterized conserved protein [Function unknown]; Region: COG0398 420890004198 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 420890004199 general stress protein 13; Validated; Region: PRK08059 420890004200 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 420890004201 RNA binding site [nucleotide binding]; other site 420890004202 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 420890004203 active site 420890004204 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 420890004205 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 420890004206 motif II; other site 420890004207 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 420890004208 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 420890004209 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 420890004210 active site 420890004211 phosphorylation site [posttranslational modification] 420890004212 intermolecular recognition site; other site 420890004213 dimerization interface [polypeptide binding]; other site 420890004214 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 420890004215 DNA binding residues [nucleotide binding] 420890004216 dimerization interface [polypeptide binding]; other site 420890004217 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 420890004218 Histidine kinase; Region: HisKA_3; pfam07730 420890004219 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 420890004220 ATP binding site [chemical binding]; other site 420890004221 Mg2+ binding site [ion binding]; other site 420890004222 G-X-G motif; other site 420890004223 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 420890004224 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 420890004225 sequence-specific DNA binding site [nucleotide binding]; other site 420890004226 salt bridge; other site 420890004227 Hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). These enzymes belong to the peptidase family M52. Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing...; Region: H2MP; cl00477 420890004228 Transposase; Region: HTH_Tnp_1; pfam01527 420890004229 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 420890004230 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 420890004231 Integrase core domain; Region: rve; pfam00665 420890004232 Integrase core domain; Region: rve_3; pfam13683 420890004233 Polysaccharide lyase family 8, C-terminal beta-sandwich domain; Region: Lyase_8_C; pfam02884 420890004234 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 420890004235 nucleoside/Zn binding site; other site 420890004236 dimer interface [polypeptide binding]; other site 420890004237 catalytic motif [active] 420890004238 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 420890004239 Predicted membrane protein [Function unknown]; Region: COG3619 420890004240 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 420890004241 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 420890004242 Int/Topo IB signature motif; other site 420890004243 Antirestriction protein (ArdA); Region: ArdA; cl01953 420890004244 CHAP domain; Region: CHAP; cl17642 420890004245 Transposase; Region: HTH_Tnp_1; pfam01527 420890004246 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 420890004247 putative transposase OrfB; Reviewed; Region: PHA02517 420890004248 HTH-like domain; Region: HTH_21; pfam13276 420890004249 Integrase core domain; Region: rve; pfam00665 420890004250 Integrase core domain; Region: rve_3; pfam13683 420890004251 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 420890004252 AAA-like domain; Region: AAA_10; pfam12846 420890004253 TcpE family; Region: TcpE; pfam12648 420890004254 translation initiation factor IF-2; Validated; Region: infB; PRK05306 420890004255 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 420890004256 Putative phage replication protein RstA [DNA replication, recombination, and repair]; Region: COG2946 420890004257 Replication initiation factor; Region: Rep_trans; pfam02486 420890004258 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 420890004259 non-specific DNA binding site [nucleotide binding]; other site 420890004260 salt bridge; other site 420890004261 sequence-specific DNA binding site [nucleotide binding]; other site 420890004262 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 420890004263 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 420890004264 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 420890004265 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 420890004266 non-specific DNA binding site [nucleotide binding]; other site 420890004267 salt bridge; other site 420890004268 sequence-specific DNA binding site [nucleotide binding]; other site 420890004269 Domain of unknown function (DUF955); Region: DUF955; cl01076 420890004270 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 420890004271 arsenical-resistance protein; Region: acr3; TIGR00832 420890004272 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 420890004273 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl17341 420890004274 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 420890004275 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 420890004276 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 420890004277 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 420890004278 active site residue [active] 420890004279 arsenical pump-driving ATPase; Region: arsen_driv_ArsA; TIGR04291 420890004280 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 420890004281 P loop; other site 420890004282 Nucleotide binding site [chemical binding]; other site 420890004283 DTAP/Switch II; other site 420890004284 Switch I; other site 420890004285 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 420890004286 DTAP/Switch II; other site 420890004287 Switch I; other site 420890004288 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 420890004289 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 420890004290 dimerization interface [polypeptide binding]; other site 420890004291 putative DNA binding site [nucleotide binding]; other site 420890004292 putative Zn2+ binding site [ion binding]; other site 420890004293 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 420890004294 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 420890004295 NADP binding site [chemical binding]; other site 420890004296 dimer interface [polypeptide binding]; other site 420890004297 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 420890004298 L-lactate permease; Region: Lactate_perm; cl00701 420890004299 Domain of unknown function (DUF389); Region: DUF389; pfam04087 420890004300 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 420890004301 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 420890004302 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 420890004303 ArsC family; Region: ArsC; pfam03960 420890004304 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 420890004305 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 420890004306 DNA-binding site [nucleotide binding]; DNA binding site 420890004307 RNA-binding motif; other site 420890004308 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 420890004309 DNA-binding site [nucleotide binding]; DNA binding site 420890004310 RNA-binding motif; other site 420890004311 CoB--CoM heterodisulfide reductase, subunit B; Region: CoB_CoM_SS_B; TIGR03288 420890004312 Cysteine-rich domain; Region: CCG; pfam02754 420890004313 Cysteine-rich domain; Region: CCG; pfam02754 420890004314 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 420890004315 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 420890004316 Uncharacterized conserved protein [Function unknown]; Region: COG1556 420890004317 Transposase; Region: HTH_Tnp_1; pfam01527 420890004318 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 420890004319 putative transposase OrfB; Reviewed; Region: PHA02517 420890004320 HTH-like domain; Region: HTH_21; pfam13276 420890004321 Integrase core domain; Region: rve; pfam00665 420890004322 Integrase core domain; Region: rve_3; pfam13683 420890004323 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 420890004324 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 420890004325 putative transporter; Provisional; Region: PRK11660 420890004326 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 420890004327 Sulfate transporter family; Region: Sulfate_transp; pfam00916 420890004328 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 420890004329 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 420890004330 Protein of unknown function (DUF1093); Region: DUF1093; cl02185 420890004331 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 420890004332 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 420890004333 Walker A/P-loop; other site 420890004334 ATP binding site [chemical binding]; other site 420890004335 Q-loop/lid; other site 420890004336 ABC transporter signature motif; other site 420890004337 Walker B; other site 420890004338 D-loop; other site 420890004339 H-loop/switch region; other site 420890004340 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 420890004341 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 420890004342 FtsX-like permease family; Region: FtsX; pfam02687 420890004343 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 420890004344 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 420890004345 putative DNA binding site [nucleotide binding]; other site 420890004346 putative Zn2+ binding site [ion binding]; other site 420890004347 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 420890004348 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 420890004349 ATP-binding cassette domain of CydCD, subfamily C; Region: ABCC_cytochrome_bd; cd03247 420890004350 Walker A/P-loop; other site 420890004351 ATP binding site [chemical binding]; other site 420890004352 Q-loop/lid; other site 420890004353 ABC transporter signature motif; other site 420890004354 Walker B; other site 420890004355 D-loop; other site 420890004356 H-loop/switch region; other site 420890004357 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 420890004358 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 420890004359 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 420890004360 Walker A/P-loop; other site 420890004361 ATP binding site [chemical binding]; other site 420890004362 Q-loop/lid; other site 420890004363 ABC transporter signature motif; other site 420890004364 Walker B; other site 420890004365 D-loop; other site 420890004366 H-loop/switch region; other site 420890004367 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 420890004368 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 420890004369 potential frameshift: common BLAST hit: gi|347522055|ref|YP_004779626.1| cytochrome D ubiquinol oxidase subunit I 420890004370 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 420890004371 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 420890004372 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 420890004373 active site 420890004374 homodimer interface [polypeptide binding]; other site 420890004375 catalytic site [active] 420890004376 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 420890004377 homodimer interface [polypeptide binding]; other site 420890004378 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 420890004379 active site pocket [active] 420890004380 glycogen synthase; Provisional; Region: glgA; PRK00654 420890004381 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 420890004382 ADP-binding pocket [chemical binding]; other site 420890004383 homodimer interface [polypeptide binding]; other site 420890004384 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 420890004385 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 420890004386 ligand binding site; other site 420890004387 oligomer interface; other site 420890004388 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 420890004389 dimer interface [polypeptide binding]; other site 420890004390 N-terminal domain interface [polypeptide binding]; other site 420890004391 sulfate 1 binding site; other site 420890004392 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 420890004393 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 420890004394 ligand binding site; other site 420890004395 oligomer interface; other site 420890004396 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 420890004397 dimer interface [polypeptide binding]; other site 420890004398 N-terminal domain interface [polypeptide binding]; other site 420890004399 sulfate 1 binding site; other site 420890004400 transcription antitermination factor NusB; Region: nusB; TIGR01951 420890004401 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 420890004402 elongation factor P; Validated; Region: PRK00529 420890004403 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 420890004404 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 420890004405 RNA binding site [nucleotide binding]; other site 420890004406 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 420890004407 RNA binding site [nucleotide binding]; other site 420890004408 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 420890004409 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 420890004410 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 420890004411 active site 420890004412 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 420890004413 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 420890004414 motif II; other site 420890004415 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 420890004416 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 420890004417 intersubunit interface [polypeptide binding]; other site 420890004418 active site 420890004419 zinc binding site [ion binding]; other site 420890004420 Na+ binding site [ion binding]; other site 420890004421 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 420890004422 ATP binding site [chemical binding]; other site 420890004423 substrate binding site [chemical binding]; other site 420890004424 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 420890004425 putative substrate binding site [chemical binding]; other site 420890004426 putative ATP binding site [chemical binding]; other site 420890004427 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 420890004428 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 420890004429 dimer interface [polypeptide binding]; other site 420890004430 active site 420890004431 AgaS-like protein. AgaS contains a SIS (Sugar ISomerase) domain which is found in many phosphosugar isomerases and phosphosugar binding proteins. AgaS is a putative isomerase in Escherichia coli. It is similar to the glucosamine-6-phosphate synthases; Region: SIS_AgaS_like; cd05010 420890004432 putative active site [active] 420890004433 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 420890004434 PTS system sorbose-specific iic component; Region: EII-Sor; pfam03609 420890004435 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 420890004436 active site 420890004437 phosphorylation site [posttranslational modification] 420890004438 Preprotein translocase subunit; Region: YajC; pfam02699 420890004439 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 420890004440 active pocket/dimerization site; other site 420890004441 active site 420890004442 phosphorylation site [posttranslational modification] 420890004443 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 420890004444 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 420890004445 active site 420890004446 dimer interface [polypeptide binding]; other site 420890004447 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 420890004448 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 420890004449 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 420890004450 putative active site [active] 420890004451 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 420890004452 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 420890004453 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 420890004454 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 420890004455 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 420890004456 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 420890004457 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 420890004458 GIY-YIG motif/motif A; other site 420890004459 putative active site [active] 420890004460 putative metal binding site [ion binding]; other site 420890004461 hypothetical protein; Provisional; Region: PRK00967 420890004462 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 420890004463 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 420890004464 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 420890004465 Thiamine pyrophosphokinase; Region: TPK; cd07995 420890004466 active site 420890004467 dimerization interface [polypeptide binding]; other site 420890004468 thiamine binding site [chemical binding]; other site 420890004469 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 420890004470 putative metal binding site [ion binding]; other site 420890004471 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 420890004472 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 420890004473 putative dimer interface [polypeptide binding]; other site 420890004474 putative anticodon binding site; other site 420890004475 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 420890004476 homodimer interface [polypeptide binding]; other site 420890004477 motif 1; other site 420890004478 motif 2; other site 420890004479 active site 420890004480 motif 3; other site 420890004481 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 420890004482 GIY-YIG motif/motif A; other site 420890004483 active site 420890004484 catalytic site [active] 420890004485 aspartate aminotransferase; Provisional; Region: PRK05764 420890004486 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 420890004487 pyridoxal 5'-phosphate binding site [chemical binding]; other site 420890004488 homodimer interface [polypeptide binding]; other site 420890004489 catalytic residue [active] 420890004490 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 420890004491 DnaQ family exonuclease/DinG family helicase, putative; Region: dinG_rel; TIGR01407 420890004492 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 420890004493 active site 420890004494 catalytic site [active] 420890004495 substrate binding site [chemical binding]; other site 420890004496 DEAD/DEAH box helicase; Region: DEAD; pfam00270 420890004497 ATP binding site [chemical binding]; other site 420890004498 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 420890004499 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 420890004500 Ligand Binding Site [chemical binding]; other site 420890004501 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 420890004502 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 420890004503 Cl binding site [ion binding]; other site 420890004504 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 420890004505 oligomer interface [polypeptide binding]; other site 420890004506 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 420890004507 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 420890004508 Predicted membrane protein [Function unknown]; Region: COG4129 420890004509 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 420890004510 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 420890004511 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 420890004512 putative metal binding site [ion binding]; other site 420890004513 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 420890004514 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 420890004515 S-adenosylmethionine binding site [chemical binding]; other site 420890004516 enolase; Provisional; Region: eno; PRK00077 420890004517 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 420890004518 dimer interface [polypeptide binding]; other site 420890004519 metal binding site [ion binding]; metal-binding site 420890004520 substrate binding pocket [chemical binding]; other site 420890004521 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 420890004522 Coenzyme A binding pocket [chemical binding]; other site 420890004523 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 420890004524 23S rRNA binding site [nucleotide binding]; other site 420890004525 L21 binding site [polypeptide binding]; other site 420890004526 L13 binding site [polypeptide binding]; other site 420890004527 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 420890004528 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 420890004529 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 420890004530 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 420890004531 Beta-N-acetylhexosaminidases of glycosyl hydrolase family 20 (GH20) catalyze the removal of beta-1,4-linked N-acetyl-D-hexosamine residues from the non-reducing ends of N-acetyl-beta-D-hexosaminides including N-acetylglucosides and N-acetylgalactosides; Region: GH20_hexosaminidase; cl02948 420890004532 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 420890004533 active site 420890004534 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 420890004535 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 420890004536 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 420890004537 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 420890004538 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 420890004539 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 420890004540 Catalytic NodB homology domain of Clostridium thermocellum acetylxylan esterase and its bacterial homologs; Region: CE4_CtAXE_like; cd10954 420890004541 NodB motif; other site 420890004542 active site 420890004543 catalytic site [active] 420890004544 Protein of unknown function (DUF3042); Region: DUF3042; pfam11240 420890004545 Protein of unknown function (DUF3042); Region: DUF3042; pfam11240 420890004546 Protein of unknown function (DUF1048); Region: DUF1048; cl01986 420890004547 Protein of unknown function (DUF1048); Region: DUF1048; cl01986 420890004548 Predicted transcriptional regulators [Transcription]; Region: COG1695 420890004549 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 420890004550 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 420890004551 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 420890004552 active site 420890004553 FMN binding site [chemical binding]; other site 420890004554 substrate binding site [chemical binding]; other site 420890004555 catalytic residues [active] 420890004556 homodimer interface [polypeptide binding]; other site 420890004557 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 420890004558 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 420890004559 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 420890004560 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 420890004561 ABC-ATPase subunit interface; other site 420890004562 dimer interface [polypeptide binding]; other site 420890004563 putative PBP binding regions; other site 420890004564 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 420890004565 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 420890004566 metal binding site [ion binding]; metal-binding site 420890004567 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 420890004568 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 420890004569 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 420890004570 Bacterial protein of unknown function (DUF948); Region: DUF948; cl01972 420890004571 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 420890004572 HPr kinase/phosphorylase; Provisional; Region: PRK05428 420890004573 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 420890004574 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 420890004575 Hpr binding site; other site 420890004576 active site 420890004577 homohexamer subunit interaction site [polypeptide binding]; other site 420890004578 Rifampin ADP-ribosyl transferase; Region: Arr-ms; pfam12120 420890004579 Predicted membrane protein [Function unknown]; Region: COG2246 420890004580 GtrA-like protein; Region: GtrA; pfam04138 420890004581 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 420890004582 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 420890004583 active site 420890004584 flavodoxin; Validated; Region: PRK07308 420890004585 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 420890004586 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 420890004587 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 420890004588 Acylphosphatase; Region: Acylphosphatase; cl00551 420890004589 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 420890004590 Lysozyme-like; Region: Lysozyme_like; pfam13702 420890004591 catalytic residue [active] 420890004592 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 420890004593 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 420890004594 dimer interface [polypeptide binding]; other site 420890004595 active site 420890004596 glycine-pyridoxal phosphate binding site [chemical binding]; other site 420890004597 folate binding site [chemical binding]; other site 420890004598 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 420890004599 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 420890004600 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 420890004601 Coenzyme A binding pocket [chemical binding]; other site 420890004602 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 420890004603 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 420890004604 S-adenosylmethionine binding site [chemical binding]; other site 420890004605 peptide chain release factor 1; Validated; Region: prfA; PRK00591 420890004606 This domain is found in peptide chain release factors; Region: PCRF; smart00937 420890004607 RF-1 domain; Region: RF-1; pfam00472 420890004608 thymidine kinase; Provisional; Region: PRK04296 420890004609 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 420890004610 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 420890004611 active site 420890004612 DNA binding site [nucleotide binding] 420890004613 Int/Topo IB signature motif; other site 420890004614 Transposase; Region: HTH_Tnp_1; pfam01527 420890004615 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 420890004616 putative transposase OrfB; Reviewed; Region: PHA02517 420890004617 HTH-like domain; Region: HTH_21; pfam13276 420890004618 Integrase core domain; Region: rve; pfam00665 420890004619 Integrase core domain; Region: rve_3; pfam13683 420890004620 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 420890004621 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 420890004622 B3/4 domain; Region: B3_4; pfam03483 420890004623 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 420890004624 dimer interface [polypeptide binding]; other site 420890004625 FMN binding site [chemical binding]; other site 420890004626 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 420890004627 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 420890004628 putative DNA binding site [nucleotide binding]; other site 420890004629 putative Zn2+ binding site [ion binding]; other site 420890004630 MepB protein; Region: MepB; pfam08877 420890004631 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 420890004632 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 420890004633 MarR family; Region: MarR_2; pfam12802 420890004634 Zeta-crystallin with NADP-dependent quinone reductase activity (QOR); Region: zeta_crystallin; cd08253 420890004635 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 420890004636 NAD(P) binding site [chemical binding]; other site 420890004637 K+ potassium transporter; Region: K_trans; cl15781 420890004638 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 420890004639 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 420890004640 active site 420890004641 homodimer interface [polypeptide binding]; other site 420890004642 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cl00290 420890004643 EAL domain; Region: EAL; pfam00563 420890004644 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 420890004645 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 420890004646 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 420890004647 active site 420890004648 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 420890004649 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 420890004650 Walker A/P-loop; other site 420890004651 ATP binding site [chemical binding]; other site 420890004652 Q-loop/lid; other site 420890004653 ABC transporter signature motif; other site 420890004654 Walker B; other site 420890004655 D-loop; other site 420890004656 H-loop/switch region; other site 420890004657 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 420890004658 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 420890004659 FtsX-like permease family; Region: FtsX; pfam02687 420890004660 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 420890004661 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 420890004662 CsbD-like; Region: CsbD; pfam05532 420890004663 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 420890004664 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 420890004665 dimer interface [polypeptide binding]; other site 420890004666 phosphorylation site [posttranslational modification] 420890004667 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 420890004668 ATP binding site [chemical binding]; other site 420890004669 Mg2+ binding site [ion binding]; other site 420890004670 G-X-G motif; other site 420890004671 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 420890004672 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 420890004673 active site 420890004674 phosphorylation site [posttranslational modification] 420890004675 intermolecular recognition site; other site 420890004676 dimerization interface [polypeptide binding]; other site 420890004677 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 420890004678 DNA binding site [nucleotide binding] 420890004679 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 420890004680 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 420890004681 active site 420890004682 motif I; other site 420890004683 motif II; other site 420890004684 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 420890004685 Collagen binding domain; Region: Collagen_bind; pfam05737 420890004686 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 420890004687 amphipathic channel; other site 420890004688 Asn-Pro-Ala signature motifs; other site 420890004689 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 420890004690 Tautomerase enzyme; Region: Tautomerase; pfam01361 420890004691 active site 1 [active] 420890004692 dimer interface [polypeptide binding]; other site 420890004693 hexamer interface [polypeptide binding]; other site 420890004694 active site 2 [active] 420890004695 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 420890004696 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 420890004697 phosphopantothenoylcysteine decarboxylase, streptococcal; Region: coaC_strep; TIGR02113 420890004698 Flavoprotein; Region: Flavoprotein; pfam02441 420890004699 Predicted membrane protein [Function unknown]; Region: COG4684 420890004700 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 420890004701 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 420890004702 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 420890004703 active site 420890004704 substrate binding site [chemical binding]; other site 420890004705 metal binding site [ion binding]; metal-binding site 420890004706 OxaA-like protein precursor; Provisional; Region: PRK02463 420890004707 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 420890004708 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 420890004709 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 420890004710 ligand binding site [chemical binding]; other site 420890004711 flexible hinge region; other site 420890004712 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 420890004713 putative switch regulator; other site 420890004714 non-specific DNA interactions [nucleotide binding]; other site 420890004715 DNA binding site [nucleotide binding] 420890004716 sequence specific DNA binding site [nucleotide binding]; other site 420890004717 putative cAMP binding site [chemical binding]; other site 420890004718 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 420890004719 Major Facilitator Superfamily; Region: MFS_1; pfam07690 420890004720 putative substrate translocation pore; other site 420890004721 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06079 420890004722 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 420890004723 NAD binding site [chemical binding]; other site 420890004724 homotetramer interface [polypeptide binding]; other site 420890004725 homodimer interface [polypeptide binding]; other site 420890004726 substrate binding site [chemical binding]; other site 420890004727 active site 420890004728 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 420890004729 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 420890004730 putative active site cavity [active] 420890004731 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 420890004732 excinuclease ABC subunit B; Provisional; Region: PRK05298 420890004733 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 420890004734 ATP binding site [chemical binding]; other site 420890004735 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 420890004736 nucleotide binding region [chemical binding]; other site 420890004737 ATP-binding site [chemical binding]; other site 420890004738 Ultra-violet resistance protein B; Region: UvrB; pfam12344 420890004739 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 420890004740 putative active site [active] 420890004741 Ap4A binding site [chemical binding]; other site 420890004742 nudix motif; other site 420890004743 putative metal binding site [ion binding]; other site 420890004744 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 420890004745 active site 420890004746 catalytic residues [active] 420890004747 metal binding site [ion binding]; metal-binding site 420890004748 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 420890004749 active site 420890004750 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 420890004751 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 420890004752 Walker A motif; other site 420890004753 ATP binding site [chemical binding]; other site 420890004754 Walker B motif; other site 420890004755 arginine finger; other site 420890004756 UvrB/uvrC motif; Region: UVR; pfam02151 420890004757 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 420890004758 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 420890004759 Walker A motif; other site 420890004760 ATP binding site [chemical binding]; other site 420890004761 Walker B motif; other site 420890004762 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 420890004763 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 420890004764 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 420890004765 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 420890004766 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 420890004767 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 420890004768 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 420890004769 DNA binding residues [nucleotide binding] 420890004770 CHC2 zinc finger; Region: zf-CHC2; pfam01807 420890004771 DNA primase; Validated; Region: dnaG; PRK05667 420890004772 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 420890004773 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 420890004774 active site 420890004775 metal binding site [ion binding]; metal-binding site 420890004776 interdomain interaction site; other site 420890004777 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 420890004778 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 420890004779 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 420890004780 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 420890004781 Protein of unknown function (DUF1033); Region: DUF1033; pfam06279 420890004782 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 420890004783 active site 420890004784 metal binding site [ion binding]; metal-binding site 420890004785 dimerization interface [polypeptide binding]; other site 420890004786 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 420890004787 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 420890004788 active site 420890004789 HIGH motif; other site 420890004790 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 420890004791 KMSKS motif; other site 420890004792 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 420890004793 tRNA binding surface [nucleotide binding]; other site 420890004794 anticodon binding site; other site 420890004795 serine O-acetyltransferase; Region: cysE; TIGR01172 420890004796 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 420890004797 trimer interface [polypeptide binding]; other site 420890004798 active site 420890004799 substrate binding site [chemical binding]; other site 420890004800 CoA binding site [chemical binding]; other site 420890004801 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 420890004802 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 420890004803 RNase E interface [polypeptide binding]; other site 420890004804 trimer interface [polypeptide binding]; other site 420890004805 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 420890004806 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 420890004807 RNase E interface [polypeptide binding]; other site 420890004808 trimer interface [polypeptide binding]; other site 420890004809 active site 420890004810 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 420890004811 putative nucleic acid binding region [nucleotide binding]; other site 420890004812 G-X-X-G motif; other site 420890004813 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 420890004814 RNA binding site [nucleotide binding]; other site 420890004815 domain interface; other site 420890004816 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 420890004817 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 420890004818 Walker A/P-loop; other site 420890004819 ATP binding site [chemical binding]; other site 420890004820 Q-loop/lid; other site 420890004821 ABC transporter signature motif; other site 420890004822 Walker B; other site 420890004823 D-loop; other site 420890004824 H-loop/switch region; other site 420890004825 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 420890004826 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 420890004827 ABC-ATPase subunit interface; other site 420890004828 dimer interface [polypeptide binding]; other site 420890004829 putative PBP binding regions; other site 420890004830 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 420890004831 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 420890004832 intersubunit interface [polypeptide binding]; other site 420890004833 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02458 420890004834 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 420890004835 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 420890004836 active site 420890004837 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 420890004838 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 420890004839 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 420890004840 catalytic residue [active] 420890004841 Putative amino acid metabolism; Region: DUF1831; pfam08866 420890004842 elongation factor Tu; Reviewed; Region: PRK00049 420890004843 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 420890004844 G1 box; other site 420890004845 GEF interaction site [polypeptide binding]; other site 420890004846 GTP/Mg2+ binding site [chemical binding]; other site 420890004847 Switch I region; other site 420890004848 G2 box; other site 420890004849 G3 box; other site 420890004850 Switch II region; other site 420890004851 G4 box; other site 420890004852 G5 box; other site 420890004853 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 420890004854 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 420890004855 Antibiotic Binding Site [chemical binding]; other site 420890004856 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 420890004857 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 420890004858 active site 420890004859 HIGH motif; other site 420890004860 nucleotide binding site [chemical binding]; other site 420890004861 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 420890004862 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 420890004863 active site 420890004864 KMSKS motif; other site 420890004865 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 420890004866 tRNA binding surface [nucleotide binding]; other site 420890004867 anticodon binding site; other site 420890004868 DivIVA domain; Region: DivI1A_domain; TIGR03544 420890004869 Cell division initiation protein [Cell division and chromosome partitioning]; Region: DivIVA; COG3599 420890004870 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 420890004871 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 420890004872 RNA binding surface [nucleotide binding]; other site 420890004873 YGGT family; Region: YGGT; pfam02325 420890004874 Protein of unknown function (DUF552); Region: DUF552; cl00775 420890004875 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 420890004876 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 420890004877 catalytic residue [active] 420890004878 cell division protein FtsZ; Validated; Region: PRK09330 420890004879 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 420890004880 nucleotide binding site [chemical binding]; other site 420890004881 SulA interaction site; other site 420890004882 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 420890004883 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 420890004884 nucleotide binding site [chemical binding]; other site 420890004885 Cell division protein FtsA; Region: FtsA; pfam14450 420890004886 EDD domain protein, DegV family; Region: DegV; TIGR00762 420890004887 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 420890004888 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 420890004889 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 420890004890 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 420890004891 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 420890004892 trimer interface [polypeptide binding]; other site 420890004893 active site 420890004894 G bulge; other site 420890004895 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 420890004896 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 420890004897 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 420890004898 dimer interface [polypeptide binding]; other site 420890004899 ADP-ribose binding site [chemical binding]; other site 420890004900 active site 420890004901 nudix motif; other site 420890004902 metal binding site [ion binding]; metal-binding site 420890004903 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 420890004904 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 420890004905 Substrate binding site; other site 420890004906 Mg++ binding site; other site 420890004907 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 420890004908 active site 420890004909 substrate binding site [chemical binding]; other site 420890004910 CoA binding site [chemical binding]; other site 420890004911 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 420890004912 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 420890004913 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 420890004914 16S/18S rRNA binding site [nucleotide binding]; other site 420890004915 S13e-L30e interaction site [polypeptide binding]; other site 420890004916 25S rRNA binding site [nucleotide binding]; other site 420890004917 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 420890004918 Catalytic domain of Protein Kinases; Region: PKc; cd00180 420890004919 active site 420890004920 ATP binding site [chemical binding]; other site 420890004921 substrate binding site [chemical binding]; other site 420890004922 activation loop (A-loop); other site 420890004923 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 420890004924 PASTA domain; Region: PASTA; smart00740 420890004925 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 420890004926 active site 420890004927 16S rRNA methyltransferase B; Provisional; Region: PRK14902 420890004928 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 420890004929 putative RNA binding site [nucleotide binding]; other site 420890004930 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 420890004931 S-adenosylmethionine binding site [chemical binding]; other site 420890004932 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 420890004933 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 420890004934 putative active site [active] 420890004935 substrate binding site [chemical binding]; other site 420890004936 putative cosubstrate binding site; other site 420890004937 catalytic site [active] 420890004938 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 420890004939 substrate binding site [chemical binding]; other site 420890004940 Nucleoside 2-deoxyribosyltransferase [Nucleotide transport and metabolism]; Region: COG3613 420890004941 Possible lysine decarboxylase; Region: Lysine_decarbox; pfam03641 420890004942 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 420890004943 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 420890004944 Substrate-binding site [chemical binding]; other site 420890004945 Substrate specificity [chemical binding]; other site 420890004946 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 420890004947 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 420890004948 ATP binding site [chemical binding]; other site 420890004949 putative Mg++ binding site [ion binding]; other site 420890004950 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 420890004951 nucleotide binding region [chemical binding]; other site 420890004952 ATP-binding site [chemical binding]; other site 420890004953 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 420890004954 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 420890004955 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 420890004956 catalytic site [active] 420890004957 G-X2-G-X-G-K; other site 420890004958 phosphodiesterase; Provisional; Region: PRK12704 420890004959 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 420890004960 Zn2+ binding site [ion binding]; other site 420890004961 Mg2+ binding site [ion binding]; other site 420890004962 S-adenosylmethionine synthetase; Validated; Region: PRK05250 420890004963 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 420890004964 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 420890004965 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 420890004966 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 420890004967 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 420890004968 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 420890004969 Putative stress-responsive transcriptional regulator [Transcription / Signal transduction mechanisms]; Region: PspC; COG1983 420890004970 Uncharacterized conserved protein [Function unknown]; Region: COG3595 420890004971 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 420890004972 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 420890004973 CHAP domain; Region: CHAP; pfam05257 420890004974 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 420890004975 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 420890004976 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 420890004977 beta-galactosidase; Region: BGL; TIGR03356 420890004978 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 420890004979 beta-galactosidase; Region: BGL; TIGR03356 420890004980 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 420890004981 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 420890004982 active site turn [active] 420890004983 phosphorylation site [posttranslational modification] 420890004984 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 420890004985 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 420890004986 HPr interaction site; other site 420890004987 glycerol kinase (GK) interaction site [polypeptide binding]; other site 420890004988 active site 420890004989 phosphorylation site [posttranslational modification] 420890004990 transcriptional antiterminator BglG; Provisional; Region: PRK09772 420890004991 CAT RNA binding domain; Region: CAT_RBD; smart01061 420890004992 PRD domain; Region: PRD; pfam00874 420890004993 PRD domain; Region: PRD; pfam00874 420890004994 Uncharacterized protein/domain associated with GTPases [Function unknown]; Region: COG3597 420890004995 Transposase; Region: DEDD_Tnp_IS110; pfam01548 420890004996 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 420890004997 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 420890004998 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 420890004999 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 420890005000 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 420890005001 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 420890005002 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 420890005003 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 420890005004 intersubunit interface [polypeptide binding]; other site 420890005005 active site 420890005006 zinc binding site [ion binding]; other site 420890005007 Na+ binding site [ion binding]; other site 420890005008 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 420890005009 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 420890005010 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 420890005011 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 420890005012 active site 420890005013 dimer interface [polypeptide binding]; other site 420890005014 motif 1; other site 420890005015 motif 2; other site 420890005016 motif 3; other site 420890005017 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 420890005018 anticodon binding site; other site 420890005019 Ferrochelatase; Region: Ferrochelatase; pfam00762 420890005020 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 420890005021 C-terminal domain interface [polypeptide binding]; other site 420890005022 active site 420890005023 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 420890005024 active site 420890005025 N-terminal domain interface [polypeptide binding]; other site 420890005026 ATP cone domain; Region: ATP-cone; pfam03477 420890005027 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 420890005028 dimer interface [polypeptide binding]; other site 420890005029 FMN binding site [chemical binding]; other site 420890005030 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 420890005031 active site 420890005032 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 420890005033 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 420890005034 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 420890005035 active site 420890005036 catalytic residues [active] 420890005037 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 420890005038 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 420890005039 generic binding surface II; other site 420890005040 generic binding surface I; other site 420890005041 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 420890005042 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 420890005043 RmuC family; Region: RmuC; pfam02646 420890005044 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 420890005045 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 420890005046 substrate binding site [chemical binding]; other site 420890005047 hexamer interface [polypeptide binding]; other site 420890005048 metal binding site [ion binding]; metal-binding site 420890005049 GTPase RsgA; Reviewed; Region: PRK00098 420890005050 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 420890005051 RNA binding site [nucleotide binding]; other site 420890005052 homodimer interface [polypeptide binding]; other site 420890005053 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 420890005054 GTPase/Zn-binding domain interface [polypeptide binding]; other site 420890005055 GTP/Mg2+ binding site [chemical binding]; other site 420890005056 G4 box; other site 420890005057 G1 box; other site 420890005058 Switch I region; other site 420890005059 G2 box; other site 420890005060 G3 box; other site 420890005061 Switch II region; other site 420890005062 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 420890005063 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 420890005064 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 420890005065 non-specific DNA binding site [nucleotide binding]; other site 420890005066 salt bridge; other site 420890005067 sequence-specific DNA binding site [nucleotide binding]; other site 420890005068 Predicted transcriptional regulator [Transcription]; Region: COG2932 420890005069 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 420890005070 Catalytic site [active] 420890005071 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 420890005072 3D domain; Region: 3D; cl01439 420890005073 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 420890005074 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 420890005075 putative tRNA-binding site [nucleotide binding]; other site 420890005076 B3/4 domain; Region: B3_4; pfam03483 420890005077 tRNA synthetase B5 domain; Region: B5; smart00874 420890005078 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 420890005079 dimer interface [polypeptide binding]; other site 420890005080 motif 1; other site 420890005081 motif 3; other site 420890005082 motif 2; other site 420890005083 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 420890005084 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 420890005085 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 420890005086 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 420890005087 dimer interface [polypeptide binding]; other site 420890005088 motif 1; other site 420890005089 active site 420890005090 motif 2; other site 420890005091 motif 3; other site 420890005092 Transposase; Region: HTH_Tnp_1; pfam01527 420890005093 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 420890005094 putative transposase OrfB; Reviewed; Region: PHA02517 420890005095 HTH-like domain; Region: HTH_21; pfam13276 420890005096 Integrase core domain; Region: rve; pfam00665 420890005097 Integrase core domain; Region: rve_3; pfam13683 420890005098 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 420890005099 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 420890005100 GDP-binding site [chemical binding]; other site 420890005101 ACT binding site; other site 420890005102 IMP binding site; other site 420890005103 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 420890005104 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 420890005105 dimerization interface [polypeptide binding]; other site 420890005106 domain crossover interface; other site 420890005107 redox-dependent activation switch; other site 420890005108 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 420890005109 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 420890005110 Cl- selectivity filter; other site 420890005111 Cl- binding residues [ion binding]; other site 420890005112 pore gating glutamate residue; other site 420890005113 dimer interface [polypeptide binding]; other site 420890005114 H+/Cl- coupling transport residue; other site 420890005115 TrkA-C domain; Region: TrkA_C; pfam02080 420890005116 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 420890005117 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 420890005118 FMN binding site [chemical binding]; other site 420890005119 active site 420890005120 catalytic residues [active] 420890005121 substrate binding site [chemical binding]; other site 420890005122 Uncharacterized conserved protein [Function unknown]; Region: COG1284 420890005123 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 420890005124 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 420890005125 Uncharacterized conserved protein [Function unknown]; Region: COG1284 420890005126 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 420890005127 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 420890005128 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 420890005129 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 420890005130 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 420890005131 dimer interface [polypeptide binding]; other site 420890005132 anticodon binding site; other site 420890005133 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 420890005134 homodimer interface [polypeptide binding]; other site 420890005135 motif 1; other site 420890005136 active site 420890005137 motif 2; other site 420890005138 GAD domain; Region: GAD; pfam02938 420890005139 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 420890005140 active site 420890005141 motif 3; other site 420890005142 histidyl-tRNA synthetase; Region: hisS; TIGR00442 420890005143 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 420890005144 dimer interface [polypeptide binding]; other site 420890005145 motif 1; other site 420890005146 active site 420890005147 motif 2; other site 420890005148 motif 3; other site 420890005149 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 420890005150 anticodon binding site; other site 420890005151 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 420890005152 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 420890005153 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 420890005154 non-specific DNA binding site [nucleotide binding]; other site 420890005155 salt bridge; other site 420890005156 sequence-specific DNA binding site [nucleotide binding]; other site 420890005157 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 420890005158 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 420890005159 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 420890005160 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 420890005161 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 420890005162 S4 domain protein YaaA; Region: YaaA_near_RecF; TIGR02988 420890005163 recombination protein F; Reviewed; Region: recF; PRK00064 420890005164 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 420890005165 Walker A/P-loop; other site 420890005166 ATP binding site [chemical binding]; other site 420890005167 Q-loop/lid; other site 420890005168 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 420890005169 ABC transporter signature motif; other site 420890005170 Walker B; other site 420890005171 D-loop; other site 420890005172 H-loop/switch region; other site 420890005173 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 420890005174 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 420890005175 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 420890005176 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 420890005177 NAD binding site [chemical binding]; other site 420890005178 homodimer interface [polypeptide binding]; other site 420890005179 active site 420890005180 substrate binding site [chemical binding]; other site 420890005181 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 420890005182 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 420890005183 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 420890005184 galactokinase; Provisional; Region: PRK05322 420890005185 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 420890005186 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 420890005187 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 420890005188 active site 420890005189 catalytic residues [active] 420890005190 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 420890005191 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 420890005192 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 420890005193 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 420890005194 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 420890005195 putative active site [active] 420890005196 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 420890005197 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 420890005198 active site 420890005199 nucleotide binding site [chemical binding]; other site 420890005200 HIGH motif; other site 420890005201 KMSKS motif; other site 420890005202 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 420890005203 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 420890005204 Peptidase family U32; Region: Peptidase_U32; pfam01136 420890005205 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 420890005206 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 420890005207 NADP binding site [chemical binding]; other site 420890005208 dimer interface [polypeptide binding]; other site 420890005209 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 420890005210 Peptidase family U32; Region: Peptidase_U32; pfam01136 420890005211 Protein of unknown function (DUF3270); Region: DUF3270; pfam11674 420890005212 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 420890005213 Methyltransferase domain; Region: Methyltransf_11; pfam08241 420890005214 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 420890005215 Bacterial ABC transporter protein EcsB; Region: EcsB; cl11542 420890005216 Bacterial ABC transporter protein EcsB; Region: EcsB; pfam05975 420890005217 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 420890005218 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 420890005219 Walker A/P-loop; other site 420890005220 ATP binding site [chemical binding]; other site 420890005221 Q-loop/lid; other site 420890005222 ABC transporter signature motif; other site 420890005223 Walker B; other site 420890005224 D-loop; other site 420890005225 H-loop/switch region; other site 420890005226 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 420890005227 HIT family signature motif; other site 420890005228 catalytic residue [active] 420890005229 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 420890005230 mRNA/rRNA interface [nucleotide binding]; other site 420890005231 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 420890005232 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 420890005233 23S rRNA interface [nucleotide binding]; other site 420890005234 L7/L12 interface [polypeptide binding]; other site 420890005235 putative thiostrepton binding site; other site 420890005236 L25 interface [polypeptide binding]; other site 420890005237 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 420890005238 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 420890005239 Walker A/P-loop; other site 420890005240 ATP binding site [chemical binding]; other site 420890005241 Q-loop/lid; other site 420890005242 ABC transporter signature motif; other site 420890005243 Walker B; other site 420890005244 D-loop; other site 420890005245 H-loop/switch region; other site 420890005246 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 420890005247 bacteriocin-associated integral membrane (putative immunity) protein; Region: bact_immun_7tm; TIGR01654 420890005248 glutamine ABC transporter ATP-binding protein; Reviewed; Region: glnQ; PRK09493 420890005249 bacteriocin-associated integral membrane (putative immunity) protein; Region: bact_immun_7tm; TIGR01654 420890005250 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 420890005251 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 420890005252 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 420890005253 dimer interface [polypeptide binding]; other site 420890005254 active site 420890005255 metal binding site [ion binding]; metal-binding site 420890005256 glutathione binding site [chemical binding]; other site 420890005257 hypothetical protein; Provisional; Region: PRK13672 420890005258 methionine sulfoxide reductase A; Provisional; Region: PRK14054 420890005259 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 420890005260 S1 domain; Region: S1_2; pfam13509 420890005261 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 420890005262 RNA binding site [nucleotide binding]; other site 420890005263 ribosome recycling factor; Reviewed; Region: frr; PRK00083 420890005264 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 420890005265 hinge region; other site 420890005266 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 420890005267 putative nucleotide binding site [chemical binding]; other site 420890005268 uridine monophosphate binding site [chemical binding]; other site 420890005269 homohexameric interface [polypeptide binding]; other site 420890005270 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 420890005271 propionate/acetate kinase; Provisional; Region: PRK12379 420890005272 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 420890005273 propionate/acetate kinase; Provisional; Region: PRK12379 420890005274 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 420890005275 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 420890005276 S-adenosylmethionine binding site [chemical binding]; other site 420890005277 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 420890005278 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 420890005279 G1 box; other site 420890005280 putative GEF interaction site [polypeptide binding]; other site 420890005281 GTP/Mg2+ binding site [chemical binding]; other site 420890005282 Switch I region; other site 420890005283 G2 box; other site 420890005284 G3 box; other site 420890005285 Switch II region; other site 420890005286 G4 box; other site 420890005287 G5 box; other site 420890005288 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 420890005289 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 420890005290 Bacterial protein of unknown function (DUF910); Region: DUF910; pfam06014 420890005291 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 420890005292 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 420890005293 nucleotide binding site [chemical binding]; other site 420890005294 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 420890005295 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 420890005296 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 420890005297 dimerization interface [polypeptide binding]; other site 420890005298 DPS ferroxidase diiron center [ion binding]; other site 420890005299 ion pore; other site 420890005300 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 420890005301 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 420890005302 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 420890005303 active site 420890005304 DNA polymerase IV; Validated; Region: PRK02406 420890005305 DNA binding site [nucleotide binding] 420890005306 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 420890005307 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 420890005308 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 420890005309 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 420890005310 SWIM zinc finger; Region: SWIM; pfam04434 420890005311 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 420890005312 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 420890005313 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 420890005314 ATP binding site [chemical binding]; other site 420890005315 putative Mg++ binding site [ion binding]; other site 420890005316 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 420890005317 nucleotide binding region [chemical binding]; other site 420890005318 ATP-binding site [chemical binding]; other site 420890005319 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 420890005320 Beta-lactamase; Region: Beta-lactamase; pfam00144 420890005321 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 420890005322 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 420890005323 CAAX protease self-immunity; Region: Abi; pfam02517 420890005324 Thiamine transporter protein (Thia_YuaJ); Region: Thia_YuaJ; cl17491 420890005325 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 420890005326 putative deacylase active site [active] 420890005327 Uncharacterized protein conserved in bacteria (DUF2128); Region: DUF2128; pfam09901 420890005328 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 420890005329 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 420890005330 hinge; other site 420890005331 active site 420890005332 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 420890005333 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 420890005334 D1, D2 subunits of photosystem II (PSII); M, L subunits of bacterial photosynthetic reaction center; Region: Photo_RC; cl08220 420890005335 Fe binding site [ion binding]; other site 420890005336 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 420890005337 Walker A/P-loop; other site 420890005338 ATP binding site [chemical binding]; other site 420890005339 Q-loop/lid; other site 420890005340 ABC transporter signature motif; other site 420890005341 Walker B; other site 420890005342 D-loop; other site 420890005343 H-loop/switch region; other site 420890005344 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 420890005345 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 420890005346 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 420890005347 Walker A/P-loop; other site 420890005348 ATP binding site [chemical binding]; other site 420890005349 Q-loop/lid; other site 420890005350 ABC transporter signature motif; other site 420890005351 Walker B; other site 420890005352 D-loop; other site 420890005353 H-loop/switch region; other site 420890005354 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 420890005355 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 420890005356 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 420890005357 MarR family; Region: MarR; pfam01047 420890005358 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 420890005359 Major Facilitator Superfamily; Region: MFS_1; pfam07690 420890005360 putative substrate translocation pore; other site 420890005361 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 420890005362 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 420890005363 Zn binding site [ion binding]; other site 420890005364 UGMP family protein; Validated; Region: PRK09604 420890005365 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 420890005366 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 420890005367 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 420890005368 Coenzyme A binding pocket [chemical binding]; other site 420890005369 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 420890005370 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 420890005371 Coenzyme A binding pocket [chemical binding]; other site 420890005372 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 420890005373 Glycoprotease family; Region: Peptidase_M22; pfam00814 420890005374 Protein of unknown function (DUF1447); Region: DUF1447; pfam07288 420890005375 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 420890005376 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 420890005377 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 420890005378 VanZ like family; Region: VanZ; pfam04892 420890005379 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 420890005380 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 420890005381 active site 420890005382 hypothetical protein; Provisional; Region: PRK04351 420890005383 SprT homologues; Region: SprT; cl01182 420890005384 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 420890005385 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 420890005386 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 420890005387 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 420890005388 RNA binding site [nucleotide binding]; other site 420890005389 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 420890005390 dimer interface [polypeptide binding]; other site 420890005391 FMN binding site [chemical binding]; other site 420890005392 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 420890005393 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 420890005394 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 420890005395 Int/Topo IB signature motif; other site 420890005396 Abi-like protein; Region: Abi_2; pfam07751 420890005397 Enterocin A Immunity; Region: EntA_Immun; pfam08951 420890005398 Enterocin A Immunity; Region: EntA_Immun; pfam08951 420890005399 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 420890005400 non-specific DNA binding site [nucleotide binding]; other site 420890005401 salt bridge; other site 420890005402 sequence-specific DNA binding site [nucleotide binding]; other site 420890005403 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 420890005404 BRO family, N-terminal domain; Region: Bro-N; cl10591 420890005405 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 420890005406 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 420890005407 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 420890005408 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 420890005409 RNA binding surface [nucleotide binding]; other site 420890005410 putative fructoselysine transporter; Provisional; Region: frlA; PRK11357 420890005411 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 420890005412 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 420890005413 Walker A/P-loop; other site 420890005414 ATP binding site [chemical binding]; other site 420890005415 Q-loop/lid; other site 420890005416 ABC transporter signature motif; other site 420890005417 Walker B; other site 420890005418 D-loop; other site 420890005419 H-loop/switch region; other site 420890005420 bacteriocin-associated integral membrane (putative immunity) protein; Region: bact_immun_7tm; TIGR01654 420890005421 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 420890005422 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 420890005423 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13649 420890005424 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 420890005425 Walker A/P-loop; other site 420890005426 ATP binding site [chemical binding]; other site 420890005427 Q-loop/lid; other site 420890005428 ABC transporter signature motif; other site 420890005429 Walker B; other site 420890005430 D-loop; other site 420890005431 H-loop/switch region; other site 420890005432 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13650 420890005433 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 420890005434 Walker A/P-loop; other site 420890005435 ATP binding site [chemical binding]; other site 420890005436 Q-loop/lid; other site 420890005437 ABC transporter signature motif; other site 420890005438 Walker B; other site 420890005439 D-loop; other site 420890005440 H-loop/switch region; other site 420890005441 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 420890005442 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 420890005443 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 420890005444 FeS/SAM binding site; other site 420890005445 Amino acid permease; Region: AA_permease_2; pfam13520 420890005446 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 420890005447 ATP cone domain; Region: ATP-cone; pfam03477 420890005448 Class III ribonucleotide reductase; Region: RNR_III; cd01675 420890005449 effector binding site; other site 420890005450 active site 420890005451 Zn binding site [ion binding]; other site 420890005452 glycine loop; other site 420890005453 Isochorismatase family; Region: Isochorismatase; pfam00857 420890005454 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 420890005455 catalytic triad [active] 420890005456 conserved cis-peptide bond; other site 420890005457 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 420890005458 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 420890005459 L-threonine dehydrogenase, extended (e) SDRs; Region: TDH_SDR_e; cd05272 420890005460 NAD binding site [chemical binding]; other site 420890005461 homodimer interface [polypeptide binding]; other site 420890005462 active site 420890005463 putative substrate binding site [chemical binding]; other site 420890005464 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 420890005465 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 420890005466 substrate-cofactor binding pocket; other site 420890005467 pyridoxal 5'-phosphate binding site [chemical binding]; other site 420890005468 catalytic residue [active] 420890005469 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 420890005470 tetramer interface [polypeptide binding]; other site 420890005471 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 420890005472 pyridoxal 5'-phosphate binding site [chemical binding]; other site 420890005473 catalytic residue [active] 420890005474 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 420890005475 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 420890005476 hexamer interface [polypeptide binding]; other site 420890005477 ligand binding site [chemical binding]; other site 420890005478 putative active site [active] 420890005479 NAD(P) binding site [chemical binding]; other site 420890005480 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 420890005481 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 420890005482 active site 420890005483 catalytic tetrad [active] 420890005484 S-ribosylhomocysteinase; Provisional; Region: PRK02260 420890005485 putative oxidoreductase; Provisional; Region: PRK10206 420890005486 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 420890005487 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 420890005488 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 420890005489 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 420890005490 Walker A/P-loop; other site 420890005491 ATP binding site [chemical binding]; other site 420890005492 Q-loop/lid; other site 420890005493 ABC transporter signature motif; other site 420890005494 Walker B; other site 420890005495 D-loop; other site 420890005496 H-loop/switch region; other site 420890005497 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 420890005498 ABC-ATPase subunit interface; other site 420890005499 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 420890005500 HI0933-like protein; Region: HI0933_like; pfam03486 420890005501 Uncharacterized conserved protein [Function unknown]; Region: COG1434 420890005502 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 420890005503 putative active site [active] 420890005504 TraX protein; Region: TraX; cl05434 420890005505 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 420890005506 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 420890005507 putative RNA binding site [nucleotide binding]; other site 420890005508 Methyltransferase domain; Region: Methyltransf_26; pfam13659 420890005509 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 420890005510 Phosphoglycerate kinase; Region: PGK; pfam00162 420890005511 substrate binding site [chemical binding]; other site 420890005512 hinge regions; other site 420890005513 ADP binding site [chemical binding]; other site 420890005514 catalytic site [active] 420890005515 Protein of unknown function (DUF4238); Region: DUF4238; pfam14022 420890005516 Protein of unknown function (DUF4238); Region: DUF4238; pfam14022 420890005517 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 420890005518 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 420890005519 generic binding surface II; other site 420890005520 generic binding surface I; other site 420890005521 DNA polymerase III, alpha chain, Gram-positive type; Region: polC_Gram_pos; TIGR01405 420890005522 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 420890005523 generic binding surface II; other site 420890005524 generic binding surface I; other site 420890005525 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 420890005526 active site 420890005527 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 420890005528 active site 420890005529 catalytic site [active] 420890005530 substrate binding site [chemical binding]; other site 420890005531 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 420890005532 prolyl-tRNA synthetase; Provisional; Region: PRK09194 420890005533 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 420890005534 dimer interface [polypeptide binding]; other site 420890005535 motif 1; other site 420890005536 active site 420890005537 motif 2; other site 420890005538 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 420890005539 putative deacylase active site [active] 420890005540 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 420890005541 active site 420890005542 motif 3; other site 420890005543 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 420890005544 anticodon binding site; other site 420890005545 RIP metalloprotease RseP; Region: TIGR00054 420890005546 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 420890005547 active site 420890005548 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 420890005549 protein binding site [polypeptide binding]; other site 420890005550 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 420890005551 putative substrate binding region [chemical binding]; other site 420890005552 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 420890005553 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 420890005554 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14830 420890005555 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 420890005556 catalytic residue [active] 420890005557 putative FPP diphosphate binding site; other site 420890005558 putative FPP binding hydrophobic cleft; other site 420890005559 dimer interface [polypeptide binding]; other site 420890005560 putative IPP diphosphate binding site; other site 420890005561 Preprotein translocase subunit; Region: YajC; pfam02699 420890005562 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 420890005563 A new structural DNA glycosylase containing HEAT-like repeats; Region: AlkD_like_1; cd07064 420890005564 active site 420890005565 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 420890005566 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 420890005567 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 420890005568 protein binding site [polypeptide binding]; other site 420890005569 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 420890005570 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 420890005571 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 420890005572 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 420890005573 putative ADP-binding pocket [chemical binding]; other site 420890005574 Protein of unknown function (DUF1797); Region: DUF1797; cl11550 420890005575 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 420890005576 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 420890005577 ligand binding site [chemical binding]; other site 420890005578 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 420890005579 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 420890005580 S-adenosylmethionine binding site [chemical binding]; other site 420890005581 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 420890005582 Alpha amylase catalytic domain found in bacterial and eukaryotic branching enzymes; Region: AmyAc_bac_euk_BE; cd11321 420890005583 active site 420890005584 catalytic site [active] 420890005585 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 420890005586 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 420890005587 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 420890005588 Protein of unknown function (DUF975); Region: DUF975; cl10504 420890005589 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 420890005590 Major Facilitator Superfamily; Region: MFS_1; pfam07690 420890005591 putative substrate translocation pore; other site 420890005592 DNA polymerase I; Provisional; Region: PRK05755 420890005593 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 420890005594 active site 420890005595 metal binding site 1 [ion binding]; metal-binding site 420890005596 putative 5' ssDNA interaction site; other site 420890005597 metal binding site 3; metal-binding site 420890005598 metal binding site 2 [ion binding]; metal-binding site 420890005599 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 420890005600 putative DNA binding site [nucleotide binding]; other site 420890005601 putative metal binding site [ion binding]; other site 420890005602 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 420890005603 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 420890005604 active site 420890005605 DNA binding site [nucleotide binding] 420890005606 catalytic site [active] 420890005607 hypothetical protein; Provisional; Region: PRK12378 420890005608 hypothetical protein; Provisional; Region: PRK13670 420890005609 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 420890005610 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 420890005611 S-adenosylmethionine binding site [chemical binding]; other site 420890005612 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 420890005613 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 420890005614 Zn2+ binding site [ion binding]; other site 420890005615 Mg2+ binding site [ion binding]; other site 420890005616 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 420890005617 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 420890005618 active site 420890005619 (T/H)XGH motif; other site 420890005620 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 420890005621 GTPases [General function prediction only]; Region: HflX; COG2262 420890005622 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 420890005623 HflX GTPase family; Region: HflX; cd01878 420890005624 G1 box; other site 420890005625 GTP/Mg2+ binding site [chemical binding]; other site 420890005626 Switch I region; other site 420890005627 G2 box; other site 420890005628 G3 box; other site 420890005629 Switch II region; other site 420890005630 G4 box; other site 420890005631 G5 box; other site 420890005632 GTPase YqeH; Provisional; Region: PRK13796 420890005633 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 420890005634 GTP/Mg2+ binding site [chemical binding]; other site 420890005635 G4 box; other site 420890005636 G5 box; other site 420890005637 G1 box; other site 420890005638 Switch I region; other site 420890005639 G2 box; other site 420890005640 G3 box; other site 420890005641 Switch II region; other site 420890005642 Negative regulator of septation ring formation [Cell division and chromosome partitioning]; Region: EzrA; COG4477 420890005643 elongation factor Ts; Provisional; Region: tsf; PRK09377 420890005644 UBA/TS-N domain; Region: UBA; pfam00627 420890005645 Elongation factor TS; Region: EF_TS; pfam00889 420890005646 Elongation factor TS; Region: EF_TS; pfam00889 420890005647 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 420890005648 rRNA interaction site [nucleotide binding]; other site 420890005649 S8 interaction site; other site 420890005650 putative laminin-1 binding site; other site 420890005651 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 420890005652 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 420890005653 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 420890005654 putative catalytic cysteine [active] 420890005655 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 420890005656 putative active site [active] 420890005657 metal binding site [ion binding]; metal-binding site 420890005658 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 420890005659 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 420890005660 protein binding site [polypeptide binding]; other site 420890005661 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 420890005662 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 420890005663 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 420890005664 active site 420890005665 (T/H)XGH motif; other site 420890005666 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 420890005667 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 420890005668 S-adenosylmethionine binding site [chemical binding]; other site 420890005669 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 420890005670 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 420890005671 active site 420890005672 dimer interface [polypeptide binding]; other site 420890005673 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 420890005674 dimer interface [polypeptide binding]; other site 420890005675 active site 420890005676 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 420890005677 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 420890005678 active site 420890005679 HIGH motif; other site 420890005680 nucleotide binding site [chemical binding]; other site 420890005681 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 420890005682 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 420890005683 active site 420890005684 KMSKS motif; other site 420890005685 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 420890005686 tRNA binding surface [nucleotide binding]; other site 420890005687 anticodon binding site; other site 420890005688 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 420890005689 Fibronectin-binding protein (FBP); Region: FBP; pfam07299 420890005690 Domain of unknown function (DUF1912); Region: DUF1912; pfam08930 420890005691 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 420890005692 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 420890005693 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 420890005694 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 420890005695 Coenzyme A binding pocket [chemical binding]; other site 420890005696 TRAM domain; Region: TRAM; pfam01938 420890005697 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 420890005698 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 420890005699 S-adenosylmethionine binding site [chemical binding]; other site 420890005700 RecX family; Region: RecX; cl00936 420890005701 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 420890005702 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 420890005703 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 420890005704 putative active site [active] 420890005705 Staphylococcal protein of unknown function (DUF960); Region: DUF960; pfam06124 420890005706 phosphodiesterase YaeI; Provisional; Region: PRK11340 420890005707 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 420890005708 putative active site [active] 420890005709 putative metal binding site [ion binding]; other site 420890005710 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 420890005711 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 420890005712 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 420890005713 dimer interface [polypeptide binding]; other site 420890005714 ssDNA binding site [nucleotide binding]; other site 420890005715 tetramer (dimer of dimers) interface [polypeptide binding]; other site 420890005716 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 420890005717 Amino acid transporters [Amino acid transport and metabolism]; Region: LysP; COG0833 420890005718 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 420890005719 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 420890005720 Walker A motif; other site 420890005721 ATP binding site [chemical binding]; other site 420890005722 Walker B motif; other site 420890005723 arginine finger; other site 420890005724 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 420890005725 substrate binding site [chemical binding]; other site 420890005726 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 420890005727 GAF domain; Region: GAF_2; pfam13185 420890005728 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3877 420890005729 hypothetical protein; Provisional; Region: PRK07248 420890005730 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 420890005731 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 420890005732 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 420890005733 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 420890005734 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 420890005735 DNA binding residues [nucleotide binding] 420890005736 putative dimer interface [polypeptide binding]; other site 420890005737 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 420890005738 Low molecular weight phosphatase family; Region: LMWPc; cd00115 420890005739 active site 420890005740 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 420890005741 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 420890005742 Walker A motif; other site 420890005743 ATP binding site [chemical binding]; other site 420890005744 Walker B motif; other site 420890005745 arginine finger; other site 420890005746 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 420890005747 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 420890005748 RuvA N terminal domain; Region: RuvA_N; pfam01330 420890005749 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 420890005750 helix-hairpin-helix signature motif; other site 420890005751 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 420890005752 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 420890005753 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 420890005754 Ligand binding site; other site 420890005755 Putative Catalytic site; other site 420890005756 DXD motif; other site 420890005757 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 420890005758 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 420890005759 ATP binding site [chemical binding]; other site 420890005760 Mg2+ binding site [ion binding]; other site 420890005761 G-X-G motif; other site 420890005762 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 420890005763 ATP binding site [chemical binding]; other site 420890005764 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 420890005765 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 420890005766 MutS domain I; Region: MutS_I; pfam01624 420890005767 MutS domain II; Region: MutS_II; pfam05188 420890005768 MutS domain III; Region: MutS_III; pfam05192 420890005769 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 420890005770 Walker A/P-loop; other site 420890005771 ATP binding site [chemical binding]; other site 420890005772 Q-loop/lid; other site 420890005773 ABC transporter signature motif; other site 420890005774 Walker B; other site 420890005775 D-loop; other site 420890005776 H-loop/switch region; other site 420890005777 Protein of unknown function (DUF964); Region: DUF964; cl01483 420890005778 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 420890005779 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 420890005780 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 420890005781 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 420890005782 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 420890005783 active site 420890005784 HIGH motif; other site 420890005785 KMSK motif region; other site 420890005786 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 420890005787 tRNA binding surface [nucleotide binding]; other site 420890005788 anticodon binding site; other site 420890005789 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 420890005790 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 420890005791 Protein of unknown function (DUF1634); Region: DUF1634; pfam07843 420890005792 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 420890005793 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 420890005794 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 420890005795 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 420890005796 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 420890005797 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 420890005798 active site 420890005799 motif I; other site 420890005800 motif II; other site 420890005801 chaperone protein DnaJ; Provisional; Region: PRK14276 420890005802 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 420890005803 HSP70 interaction site [polypeptide binding]; other site 420890005804 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 420890005805 substrate binding site [polypeptide binding]; other site 420890005806 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 420890005807 Zn binding sites [ion binding]; other site 420890005808 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 420890005809 dimer interface [polypeptide binding]; other site 420890005810 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 420890005811 CHAP domain; Region: CHAP; pfam05257 420890005812 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 420890005813 Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; Region: SPEC; cl02488 420890005814 linker region; other site 420890005815 Surface antigen [General function prediction only]; Region: COG3942 420890005816 CHAP domain; Region: CHAP; pfam05257 420890005817 rod shape-determining protein MreD; Region: MreD; cl01087 420890005818 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 420890005819 rod shape-determining protein MreC; Region: MreC; pfam04085 420890005820 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 420890005821 nudix motif; other site 420890005822 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 420890005823 tetramer (dimer of dimers) interface [polypeptide binding]; other site 420890005824 active site 420890005825 dimer interface [polypeptide binding]; other site 420890005826 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 420890005827 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 420890005828 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 420890005829 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 420890005830 Walker A/P-loop; other site 420890005831 ATP binding site [chemical binding]; other site 420890005832 Q-loop/lid; other site 420890005833 ABC transporter signature motif; other site 420890005834 Walker B; other site 420890005835 D-loop; other site 420890005836 H-loop/switch region; other site 420890005837 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 420890005838 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 420890005839 RNA binding surface [nucleotide binding]; other site 420890005840 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 420890005841 active site 420890005842 uracil binding [chemical binding]; other site 420890005843 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 420890005844 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 420890005845 trmE is a tRNA modification GTPase; Region: trmE; cd04164 420890005846 G1 box; other site 420890005847 GTP/Mg2+ binding site [chemical binding]; other site 420890005848 Switch I region; other site 420890005849 G2 box; other site 420890005850 Switch II region; other site 420890005851 G3 box; other site 420890005852 G4 box; other site 420890005853 G5 box; other site 420890005854 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 420890005855 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 420890005856 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 420890005857 generic binding surface II; other site 420890005858 ssDNA binding site; other site 420890005859 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 420890005860 ATP binding site [chemical binding]; other site 420890005861 putative Mg++ binding site [ion binding]; other site 420890005862 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 420890005863 nucleotide binding region [chemical binding]; other site 420890005864 ATP-binding site [chemical binding]; other site 420890005865 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 420890005866 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 420890005867 PhnA protein; Region: PhnA; pfam03831 420890005868 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 420890005869 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 420890005870 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 420890005871 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 420890005872 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 420890005873 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 420890005874 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 420890005875 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 420890005876 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 420890005877 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 420890005878 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 420890005879 motif II; other site 420890005880 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 420890005881 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 420890005882 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 420890005883 putative active site [active] 420890005884 catalytic site [active] 420890005885 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 420890005886 putative active site [active] 420890005887 catalytic site [active] 420890005888 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 420890005889 MgtC family; Region: MgtC; pfam02308 420890005890 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 420890005891 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 420890005892 23S rRNA interface [nucleotide binding]; other site 420890005893 L3 interface [polypeptide binding]; other site 420890005894 ribonuclease HIII; Provisional; Region: PRK00996 420890005895 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 420890005896 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 420890005897 RNA/DNA hybrid binding site [nucleotide binding]; other site 420890005898 active site 420890005899 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 420890005900 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 420890005901 Catalytic site [active] 420890005902 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 420890005903 Predicted membrane protein (DUF2127); Region: DUF2127; cl01785 420890005904 pur operon repressor; Provisional; Region: PRK09213 420890005905 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 420890005906 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 420890005907 active site 420890005908 elongation factor G; Reviewed; Region: PRK00007 420890005909 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 420890005910 G1 box; other site 420890005911 putative GEF interaction site [polypeptide binding]; other site 420890005912 GTP/Mg2+ binding site [chemical binding]; other site 420890005913 Switch I region; other site 420890005914 G2 box; other site 420890005915 G3 box; other site 420890005916 Switch II region; other site 420890005917 G4 box; other site 420890005918 G5 box; other site 420890005919 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 420890005920 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 420890005921 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 420890005922 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 420890005923 OPT oligopeptide transporter protein; Region: OPT; pfam03169 420890005924 30S ribosomal protein S7; Validated; Region: PRK05302 420890005925 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 420890005926 S17 interaction site [polypeptide binding]; other site 420890005927 S8 interaction site; other site 420890005928 16S rRNA interaction site [nucleotide binding]; other site 420890005929 streptomycin interaction site [chemical binding]; other site 420890005930 23S rRNA interaction site [nucleotide binding]; other site 420890005931 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 420890005932 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 420890005933 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 420890005934 non-specific DNA binding site [nucleotide binding]; other site 420890005935 salt bridge; other site 420890005936 sequence-specific DNA binding site [nucleotide binding]; other site 420890005937 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 420890005938 Beta-lactamase; Region: Beta-lactamase; cl17358 420890005939 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 420890005940 amino acid transporter; Region: 2A0306; TIGR00909 420890005941 Putative glucose uptake permease [Carbohydrate transport and metabolism]; Region: GlcU; COG4975 420890005942 Putative rRNA methylase; Region: rRNA_methylase; pfam06962 420890005943 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 420890005944 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 420890005945 FeS/SAM binding site; other site 420890005946 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 420890005947 ParB-like nuclease domain; Region: ParBc; pfam02195