-- dump date 20140619_125129 -- class Genbank::misc_feature -- table misc_feature_note -- id note 420889000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 420889000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 420889000003 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 420889000004 Walker A motif; other site 420889000005 ATP binding site [chemical binding]; other site 420889000006 Walker B motif; other site 420889000007 arginine finger; other site 420889000008 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 420889000009 DnaA box-binding interface [nucleotide binding]; other site 420889000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 420889000011 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 420889000012 putative DNA binding surface [nucleotide binding]; other site 420889000013 dimer interface [polypeptide binding]; other site 420889000014 beta-clamp/clamp loader binding surface; other site 420889000015 beta-clamp/translesion DNA polymerase binding surface; other site 420889000016 ATP-dependent nuclease, subunit B [DNA replication, recombination, and repair]; Region: AddB; COG3857 420889000017 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 420889000018 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 420889000019 Part of AAA domain; Region: AAA_19; pfam13245 420889000020 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 420889000021 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 420889000022 GTP-binding protein YchF; Reviewed; Region: PRK09601 420889000023 YchF GTPase; Region: YchF; cd01900 420889000024 G1 box; other site 420889000025 GTP/Mg2+ binding site [chemical binding]; other site 420889000026 Switch I region; other site 420889000027 G2 box; other site 420889000028 Switch II region; other site 420889000029 G3 box; other site 420889000030 G4 box; other site 420889000031 G5 box; other site 420889000032 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 420889000033 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 420889000034 putative active site [active] 420889000035 catalytic residue [active] 420889000036 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 420889000037 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 420889000038 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 420889000039 ATP binding site [chemical binding]; other site 420889000040 putative Mg++ binding site [ion binding]; other site 420889000041 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 420889000042 nucleotide binding region [chemical binding]; other site 420889000043 ATP-binding site [chemical binding]; other site 420889000044 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 420889000045 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 420889000046 RNA binding surface [nucleotide binding]; other site 420889000047 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 420889000048 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 420889000049 RNA binding site [nucleotide binding]; other site 420889000050 Aromatic ring hydroxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2368 420889000051 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 420889000052 SH3-like domain; Region: SH3_8; pfam13457 420889000053 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 420889000054 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 420889000055 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 420889000056 Ligand Binding Site [chemical binding]; other site 420889000057 TilS substrate C-terminal domain; Region: TilS_C; smart00977 420889000058 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 420889000059 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 420889000060 active site 420889000061 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 420889000062 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 420889000063 Walker A motif; other site 420889000064 ATP binding site [chemical binding]; other site 420889000065 Walker B motif; other site 420889000066 arginine finger; other site 420889000067 Peptidase family M41; Region: Peptidase_M41; pfam01434 420889000068 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 420889000069 non-specific DNA binding site [nucleotide binding]; other site 420889000070 salt bridge; other site 420889000071 sequence-specific DNA binding site [nucleotide binding]; other site 420889000072 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 420889000073 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 420889000074 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 420889000075 Walker A motif; other site 420889000076 ATP binding site [chemical binding]; other site 420889000077 Walker B motif; other site 420889000078 arginine finger; other site 420889000079 Domain of unknown function (DUF955); Region: DUF955; cl01076 420889000080 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 420889000081 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 420889000082 non-specific DNA binding site [nucleotide binding]; other site 420889000083 salt bridge; other site 420889000084 sequence-specific DNA binding site [nucleotide binding]; other site 420889000085 Recombination protein O N terminal; Region: RecO_N; pfam11967 420889000086 DNA repair protein RecO; Region: reco; TIGR00613 420889000087 Recombination protein O C terminal; Region: RecO_C; pfam02565 420889000088 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 420889000089 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 420889000090 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 420889000091 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 420889000092 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 420889000093 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 420889000094 E3 interaction surface; other site 420889000095 lipoyl attachment site [posttranslational modification]; other site 420889000096 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 420889000097 E3 interaction surface; other site 420889000098 lipoyl attachment site [posttranslational modification]; other site 420889000099 e3 binding domain; Region: E3_binding; pfam02817 420889000100 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 420889000101 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 420889000102 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 420889000103 alpha subunit interface [polypeptide binding]; other site 420889000104 TPP binding site [chemical binding]; other site 420889000105 heterodimer interface [polypeptide binding]; other site 420889000106 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 420889000107 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 420889000108 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 420889000109 tetramer interface [polypeptide binding]; other site 420889000110 TPP-binding site [chemical binding]; other site 420889000111 heterodimer interface [polypeptide binding]; other site 420889000112 phosphorylation loop region [posttranslational modification] 420889000113 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 420889000114 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 420889000115 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 420889000116 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 420889000117 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 420889000118 active site 420889000119 catalytic site [active] 420889000120 metal binding site [ion binding]; metal-binding site 420889000121 dimer interface [polypeptide binding]; other site 420889000122 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 420889000123 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 420889000124 Zn2+ binding site [ion binding]; other site 420889000125 Mg2+ binding site [ion binding]; other site 420889000126 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 420889000127 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 420889000128 active site 420889000129 HIGH motif; other site 420889000130 dimer interface [polypeptide binding]; other site 420889000131 KMSKS motif; other site 420889000132 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 420889000133 magnesium-transporting ATPase MgtA; Provisional; Region: PRK10517 420889000134 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 420889000135 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 420889000136 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 420889000137 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 420889000138 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 420889000139 putative phosphate acyltransferase; Provisional; Region: PRK05331 420889000140 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 420889000141 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 420889000142 active site 420889000143 motif I; other site 420889000144 motif II; other site 420889000145 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 420889000146 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 420889000147 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 420889000148 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 420889000149 ABC transporter; Region: ABC_tran_2; pfam12848 420889000150 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 420889000151 Flagellin N-methylase; Region: FliB; pfam03692 420889000152 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 420889000153 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 420889000154 DNA binding residues [nucleotide binding] 420889000155 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 420889000156 Predicted membrane protein [Function unknown]; Region: COG1511 420889000157 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 420889000158 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 420889000159 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 420889000160 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 420889000161 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 420889000162 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 420889000163 active site 420889000164 benzoate transport; Region: 2A0115; TIGR00895 420889000165 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 420889000166 putative substrate translocation pore; other site 420889000167 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 420889000168 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 420889000169 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 420889000170 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 420889000171 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 420889000172 recombination factor protein RarA; Reviewed; Region: PRK13342 420889000173 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 420889000174 Walker A motif; other site 420889000175 ATP binding site [chemical binding]; other site 420889000176 Walker B motif; other site 420889000177 arginine finger; other site 420889000178 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 420889000179 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 420889000180 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 420889000181 Coenzyme A binding pocket [chemical binding]; other site 420889000182 Protein of unknown function (DUF3013); Region: DUF3013; pfam11217 420889000183 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 420889000184 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 420889000185 S-adenosylmethionine binding site [chemical binding]; other site 420889000186 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 420889000187 RNA methyltransferase, RsmE family; Region: TIGR00046 420889000188 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 420889000189 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 420889000190 Zn2+ binding site [ion binding]; other site 420889000191 Mg2+ binding site [ion binding]; other site 420889000192 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 420889000193 synthetase active site [active] 420889000194 NTP binding site [chemical binding]; other site 420889000195 metal binding site [ion binding]; metal-binding site 420889000196 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 420889000197 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 420889000198 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 420889000199 putative active site [active] 420889000200 dimerization interface [polypeptide binding]; other site 420889000201 putative tRNAtyr binding site [nucleotide binding]; other site 420889000202 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 420889000203 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 420889000204 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 420889000205 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 420889000206 putative acyl-acceptor binding pocket; other site 420889000207 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 420889000208 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 420889000209 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 420889000210 nucleotide binding region [chemical binding]; other site 420889000211 ATP-binding site [chemical binding]; other site 420889000212 SEC-C motif; Region: SEC-C; pfam02810 420889000213 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroG; cl17260 420889000214 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 420889000215 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 420889000216 dimerization domain swap beta strand [polypeptide binding]; other site 420889000217 regulatory protein interface [polypeptide binding]; other site 420889000218 active site 420889000219 regulatory phosphorylation site [posttranslational modification]; other site 420889000220 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 420889000221 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 420889000222 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 420889000223 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 420889000224 hypothetical protein; Validated; Region: PRK00153 420889000225 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 420889000226 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 420889000227 ribonuclease P; Reviewed; Region: rnpA; PRK00499 420889000228 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 420889000229 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 420889000230 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 420889000231 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 420889000232 G-X-X-G motif; other site 420889000233 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 420889000234 RxxxH motif; other site 420889000235 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 420889000236 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 420889000237 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 420889000238 active site 420889000239 catalytic tetrad [active] 420889000240 hypothetical protein; Provisional; Region: PRK05473 420889000241 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 420889000242 hypothetical protein; Provisional; Region: PRK13678 420889000243 2-acyl-glycerophospho-ethanolamine acyltransferase; Validated; Region: PRK08633 420889000244 Pleiotropic transcriptional repressor [Transcription]; Region: CodY; COG4465 420889000245 CodY GAF-like domain; Region: CodY; pfam06018 420889000246 CodY helix-turn-helix domain; Region: HTH_CodY; pfam08222 420889000247 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 420889000248 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 420889000249 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 420889000250 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 420889000251 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 420889000252 GatB domain; Region: GatB_Yqey; smart00845 420889000253 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 420889000254 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 420889000255 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 420889000256 DNA-binding site [nucleotide binding]; DNA binding site 420889000257 RNA-binding motif; other site 420889000258 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 420889000259 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 420889000260 Rhomboid family; Region: Rhomboid; pfam01694 420889000261 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 420889000262 trimer interface [polypeptide binding]; other site 420889000263 active site 420889000264 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 420889000265 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 420889000266 active site 420889000267 metal binding site [ion binding]; metal-binding site 420889000268 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 420889000269 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4470 420889000270 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14455 420889000271 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 420889000272 FeS/SAM binding site; other site 420889000273 arginine deiminase; Provisional; Region: PRK01388 420889000274 ornithine carbamoyltransferase; Validated; Region: PRK02102 420889000275 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 420889000276 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 420889000277 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 420889000278 carbamate kinase; Reviewed; Region: PRK12686 420889000279 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 420889000280 putative substrate binding site [chemical binding]; other site 420889000281 nucleotide binding site [chemical binding]; other site 420889000282 nucleotide binding site [chemical binding]; other site 420889000283 homodimer interface [polypeptide binding]; other site 420889000284 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 420889000285 putative deacylase active site [active] 420889000286 transaminase; Validated; Region: PRK07324 420889000287 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 420889000288 pyridoxal 5'-phosphate binding site [chemical binding]; other site 420889000289 homodimer interface [polypeptide binding]; other site 420889000290 catalytic residue [active] 420889000291 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 420889000292 dimer interface [polypeptide binding]; other site 420889000293 FMN binding site [chemical binding]; other site 420889000294 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 420889000295 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 420889000296 substrate binding pocket [chemical binding]; other site 420889000297 chain length determination region; other site 420889000298 substrate-Mg2+ binding site; other site 420889000299 catalytic residues [active] 420889000300 aspartate-rich region 1; other site 420889000301 active site lid residues [active] 420889000302 aspartate-rich region 2; other site 420889000303 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 420889000304 UbiA prenyltransferase family; Region: UbiA; pfam01040 420889000305 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 420889000306 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 420889000307 G1 box; other site 420889000308 GTP/Mg2+ binding site [chemical binding]; other site 420889000309 Switch I region; other site 420889000310 G2 box; other site 420889000311 G3 box; other site 420889000312 Switch II region; other site 420889000313 G4 box; other site 420889000314 G5 box; other site 420889000315 Nucleoside recognition; Region: Gate; pfam07670 420889000316 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 420889000317 Nucleoside recognition; Region: Gate; pfam07670 420889000318 FeoA domain; Region: FeoA; cl00838 420889000319 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 420889000320 Predicted kinase related to dihydroxyacetone kinase [General function prediction only]; Region: COG1461 420889000321 DAK2 domain; Region: Dak2; pfam02734 420889000322 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 420889000323 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 420889000324 Protein of unknown function (DUF1129); Region: DUF1129; cl11555 420889000325 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 420889000326 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 420889000327 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 420889000328 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 420889000329 motif II; other site 420889000330 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 420889000331 potential frameshift: common BLAST hit: gi|116511039|ref|YP_808255.1| glycosyltransferase 420889000332 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 420889000333 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 420889000334 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 420889000335 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 420889000336 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 420889000337 substrate binding site; other site 420889000338 tetramer interface; other site 420889000339 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 420889000340 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 420889000341 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 420889000342 NAD binding site [chemical binding]; other site 420889000343 substrate binding site [chemical binding]; other site 420889000344 homodimer interface [polypeptide binding]; other site 420889000345 active site 420889000346 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 420889000347 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 420889000348 NADP binding site [chemical binding]; other site 420889000349 active site 420889000350 putative substrate binding site [chemical binding]; other site 420889000351 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 420889000352 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 420889000353 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 420889000354 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 420889000355 Probable Catalytic site; other site 420889000356 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 420889000357 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 420889000358 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 420889000359 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 420889000360 Walker A/P-loop; other site 420889000361 ATP binding site [chemical binding]; other site 420889000362 Q-loop/lid; other site 420889000363 ABC transporter signature motif; other site 420889000364 Walker B; other site 420889000365 D-loop; other site 420889000366 H-loop/switch region; other site 420889000367 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 420889000368 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 420889000369 active site 420889000370 Lipopolysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: RgpF; COG3754 420889000371 Predicted membrane protein (DUF2142); Region: DUF2142; pfam09913 420889000372 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 420889000373 Ligand binding site; other site 420889000374 Putative Catalytic site; other site 420889000375 DXD motif; other site 420889000376 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 420889000377 active site 420889000378 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 420889000379 active site 420889000380 Protein of unknown function (DUF3184); Region: DUF3184; pfam11380 420889000381 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 420889000382 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 420889000383 active site 420889000384 beta-1,6-galactofuranosyltransferase; Provisional; Region: PRK09814 420889000385 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 420889000386 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 420889000387 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 420889000388 UDP-galactopyranose mutase; Region: GLF; pfam03275 420889000389 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 420889000390 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 420889000391 Predicted membrane protein (DUF2142); Region: DUF2142; pfam09913 420889000392 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 420889000393 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 420889000394 active site 420889000395 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 420889000396 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 420889000397 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 420889000398 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 420889000399 active site 420889000400 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 420889000401 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 420889000402 Walker A motif; other site 420889000403 ATP binding site [chemical binding]; other site 420889000404 Walker B motif; other site 420889000405 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 420889000406 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 420889000407 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 420889000408 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 420889000409 Type II secretory pathway pseudopilin; Region: PulG; pfam11773 420889000410 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 420889000411 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 420889000412 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 420889000413 metal binding site [ion binding]; metal-binding site 420889000414 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 420889000415 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 420889000416 active site 420889000417 Transglycosylase; Region: Transgly; pfam00912 420889000418 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 420889000419 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 420889000420 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 420889000421 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 420889000422 catalytic triad [active] 420889000423 catalytic triad [active] 420889000424 oxyanion hole [active] 420889000425 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 420889000426 Preprotein translocase subunit SecE [Intracellular trafficking and secretion]; Region: SecE; COG0690 420889000427 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 420889000428 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 420889000429 putative homodimer interface [polypeptide binding]; other site 420889000430 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 420889000431 heterodimer interface [polypeptide binding]; other site 420889000432 homodimer interface [polypeptide binding]; other site 420889000433 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 420889000434 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 420889000435 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 420889000436 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 420889000437 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 420889000438 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 420889000439 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 420889000440 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 420889000441 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 420889000442 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 420889000443 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 420889000444 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 420889000445 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 420889000446 putative translocon binding site; other site 420889000447 protein-rRNA interface [nucleotide binding]; other site 420889000448 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 420889000449 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 420889000450 G-X-X-G motif; other site 420889000451 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 420889000452 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 420889000453 23S rRNA interface [nucleotide binding]; other site 420889000454 5S rRNA interface [nucleotide binding]; other site 420889000455 putative antibiotic binding site [chemical binding]; other site 420889000456 L25 interface [polypeptide binding]; other site 420889000457 L27 interface [polypeptide binding]; other site 420889000458 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 420889000459 23S rRNA interface [nucleotide binding]; other site 420889000460 putative translocon interaction site; other site 420889000461 signal recognition particle (SRP54) interaction site; other site 420889000462 L23 interface [polypeptide binding]; other site 420889000463 trigger factor interaction site; other site 420889000464 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 420889000465 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 420889000466 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 420889000467 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 420889000468 RNA binding site [nucleotide binding]; other site 420889000469 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 420889000470 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 420889000471 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 420889000472 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 420889000473 Na/Pi-cotransporter; Region: NaPi_cotrn_rel; TIGR00704 420889000474 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 420889000475 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 420889000476 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 420889000477 tetramer (dimer of dimers) interface [polypeptide binding]; other site 420889000478 NAD binding site [chemical binding]; other site 420889000479 dimer interface [polypeptide binding]; other site 420889000480 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 420889000481 substrate binding site [chemical binding]; other site 420889000482 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 420889000483 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 420889000484 NADP binding site [chemical binding]; other site 420889000485 active site 420889000486 putative substrate binding site [chemical binding]; other site 420889000487 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 420889000488 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 420889000489 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 420889000490 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 420889000491 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 420889000492 5S rRNA interface [nucleotide binding]; other site 420889000493 L27 interface [polypeptide binding]; other site 420889000494 23S rRNA interface [nucleotide binding]; other site 420889000495 L5 interface [polypeptide binding]; other site 420889000496 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 420889000497 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 420889000498 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 420889000499 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 420889000500 23S rRNA binding site [nucleotide binding]; other site 420889000501 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 420889000502 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 420889000503 ligand binding site [chemical binding]; other site 420889000504 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 420889000505 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 420889000506 SecY translocase; Region: SecY; pfam00344 420889000507 adenylate kinase; Reviewed; Region: adk; PRK00279 420889000508 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 420889000509 AMP-binding site [chemical binding]; other site 420889000510 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 420889000511 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 420889000512 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 420889000513 ABC-ATPase subunit interface; other site 420889000514 dimer interface [polypeptide binding]; other site 420889000515 putative PBP binding regions; other site 420889000516 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 420889000517 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 420889000518 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 420889000519 MarR family; Region: MarR; pfam01047 420889000520 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 420889000521 rRNA binding site [nucleotide binding]; other site 420889000522 predicted 30S ribosome binding site; other site 420889000523 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 420889000524 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 420889000525 30S ribosomal protein S13; Region: bact_S13; TIGR03631 420889000526 30S ribosomal protein S11; Validated; Region: PRK05309 420889000527 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 420889000528 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 420889000529 alphaNTD homodimer interface [polypeptide binding]; other site 420889000530 alphaNTD - beta interaction site [polypeptide binding]; other site 420889000531 alphaNTD - beta' interaction site [polypeptide binding]; other site 420889000532 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 420889000533 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 420889000534 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 420889000535 Walker A motif; other site 420889000536 ATP binding site [chemical binding]; other site 420889000537 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 420889000538 Walker B motif; other site 420889000539 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 420889000540 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 420889000541 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 420889000542 putative active site [active] 420889000543 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 420889000544 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 420889000545 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 420889000546 hexamer interface [polypeptide binding]; other site 420889000547 ligand binding site [chemical binding]; other site 420889000548 putative active site [active] 420889000549 NAD(P) binding site [chemical binding]; other site 420889000550 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 420889000551 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 420889000552 Coenzyme A binding pocket [chemical binding]; other site 420889000553 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 420889000554 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 420889000555 active site 420889000556 HIGH motif; other site 420889000557 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 420889000558 active site 420889000559 KMSKS motif; other site 420889000560 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 420889000561 2-enoyl thioester reductase-like; Region: ETR_like; cd05282 420889000562 NADP binding site [chemical binding]; other site 420889000563 dimer interface [polypeptide binding]; other site 420889000564 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 420889000565 Cna protein B-type domain; Region: Cna_B; pfam05738 420889000566 Cna protein B-type domain; Region: Cna_B; pfam05738 420889000567 Cna protein B-type domain; Region: Cna_B; pfam05738 420889000568 x-prolyl-dipeptidyl aminopeptidase; Provisional; Region: PRK05371 420889000569 X-Prolyl dipeptidyl aminopeptidase PepX, N-terminal; Region: PepX_N; cl07696 420889000570 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 420889000571 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 420889000572 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 420889000573 ligand binding site [chemical binding]; other site 420889000574 flexible hinge region; other site 420889000575 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 420889000576 non-specific DNA interactions [nucleotide binding]; other site 420889000577 DNA binding site [nucleotide binding] 420889000578 sequence specific DNA binding site [nucleotide binding]; other site 420889000579 putative cAMP binding site [chemical binding]; other site 420889000580 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 420889000581 amphipathic channel; other site 420889000582 Asn-Pro-Ala signature motifs; other site 420889000583 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 420889000584 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 420889000585 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 420889000586 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 420889000587 Walker A/P-loop; other site 420889000588 ATP binding site [chemical binding]; other site 420889000589 Q-loop/lid; other site 420889000590 ABC transporter signature motif; other site 420889000591 Walker B; other site 420889000592 D-loop; other site 420889000593 H-loop/switch region; other site 420889000594 NIL domain; Region: NIL; pfam09383 420889000595 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 420889000596 dimer interface [polypeptide binding]; other site 420889000597 conserved gate region; other site 420889000598 ABC-ATPase subunit interface; other site 420889000599 dipeptidase PepV; Reviewed; Region: PRK07318 420889000600 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 420889000601 active site 420889000602 metal binding site [ion binding]; metal-binding site 420889000603 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 420889000604 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 420889000605 non-specific DNA binding site [nucleotide binding]; other site 420889000606 salt bridge; other site 420889000607 sequence-specific DNA binding site [nucleotide binding]; other site 420889000608 Transcriptional regulator [Transcription]; Region: LysR; COG0583 420889000609 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 420889000610 LysR substrate binding domain; Region: LysR_substrate; pfam03466 420889000611 dimerization interface [polypeptide binding]; other site 420889000612 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 420889000613 catalytic core [active] 420889000614 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 420889000615 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 420889000616 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 420889000617 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 420889000618 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 420889000619 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 420889000620 gating phenylalanine in ion channel; other site 420889000621 Transcriptional regulator [Transcription]; Region: LysR; COG0583 420889000622 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 420889000623 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 420889000624 dimerization interface [polypeptide binding]; other site 420889000625 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 420889000626 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 420889000627 recombination protein RecR; Reviewed; Region: recR; PRK00076 420889000628 RecR protein; Region: RecR; pfam02132 420889000629 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 420889000630 putative active site [active] 420889000631 putative metal-binding site [ion binding]; other site 420889000632 tetramer interface [polypeptide binding]; other site 420889000633 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 420889000634 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 420889000635 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 420889000636 Uncharacterized protein YrkD from Bacillus subtilis and related domains; this domain superfamily was previously known as part of DUF156; Region: BsYrkD-like_DUF156; cd10155 420889000637 putative homodimer interface [polypeptide binding]; other site 420889000638 putative homotetramer interface [polypeptide binding]; other site 420889000639 putative metal binding site [ion binding]; other site 420889000640 putative homodimer-homodimer interface [polypeptide binding]; other site 420889000641 putative allosteric switch controlling residues; other site 420889000642 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 420889000643 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 420889000644 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 420889000645 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 420889000646 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 420889000647 peptide binding site [polypeptide binding]; other site 420889000648 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 420889000649 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 420889000650 dimer interface [polypeptide binding]; other site 420889000651 conserved gate region; other site 420889000652 putative PBP binding loops; other site 420889000653 ABC-ATPase subunit interface; other site 420889000654 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 420889000655 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 420889000656 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 420889000657 dimer interface [polypeptide binding]; other site 420889000658 conserved gate region; other site 420889000659 putative PBP binding loops; other site 420889000660 ABC-ATPase subunit interface; other site 420889000661 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 420889000662 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 420889000663 Walker A/P-loop; other site 420889000664 ATP binding site [chemical binding]; other site 420889000665 Q-loop/lid; other site 420889000666 ABC transporter signature motif; other site 420889000667 Walker B; other site 420889000668 D-loop; other site 420889000669 H-loop/switch region; other site 420889000670 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 420889000671 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 420889000672 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 420889000673 Walker A/P-loop; other site 420889000674 ATP binding site [chemical binding]; other site 420889000675 Q-loop/lid; other site 420889000676 ABC transporter signature motif; other site 420889000677 Walker B; other site 420889000678 D-loop; other site 420889000679 H-loop/switch region; other site 420889000680 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 420889000681 Divergent PAP2 family; Region: DUF212; pfam02681 420889000682 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 420889000683 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 420889000684 G1 box; other site 420889000685 putative GEF interaction site [polypeptide binding]; other site 420889000686 GTP/Mg2+ binding site [chemical binding]; other site 420889000687 Switch I region; other site 420889000688 G2 box; other site 420889000689 G3 box; other site 420889000690 Switch II region; other site 420889000691 G4 box; other site 420889000692 G5 box; other site 420889000693 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 420889000694 Sulfatase; Region: Sulfatase; pfam00884 420889000695 helicase 45; Provisional; Region: PTZ00424 420889000696 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 420889000697 ATP binding site [chemical binding]; other site 420889000698 Mg++ binding site [ion binding]; other site 420889000699 motif III; other site 420889000700 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 420889000701 nucleotide binding region [chemical binding]; other site 420889000702 ATP-binding site [chemical binding]; other site 420889000703 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 420889000704 Catalytic site [active] 420889000705 Cna protein B-type domain; Region: Cna_B; pfam05738 420889000706 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 420889000707 domain interaction interfaces [polypeptide binding]; other site 420889000708 streptococcal pilin isopeptide linkage domain; Region: strep_pil_rpt; TIGR03786 420889000709 GTPase Era; Reviewed; Region: era; PRK00089 420889000710 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 420889000711 G1 box; other site 420889000712 GTP/Mg2+ binding site [chemical binding]; other site 420889000713 Switch I region; other site 420889000714 G2 box; other site 420889000715 Switch II region; other site 420889000716 G3 box; other site 420889000717 G4 box; other site 420889000718 G5 box; other site 420889000719 KH domain; Region: KH_2; pfam07650 420889000720 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 420889000721 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 420889000722 DNA binding site [nucleotide binding] 420889000723 catalytic residue [active] 420889000724 H2TH interface [polypeptide binding]; other site 420889000725 putative catalytic residues [active] 420889000726 turnover-facilitating residue; other site 420889000727 intercalation triad [nucleotide binding]; other site 420889000728 8OG recognition residue [nucleotide binding]; other site 420889000729 putative reading head residues; other site 420889000730 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 420889000731 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 420889000732 recombinase A; Provisional; Region: recA; PRK09354 420889000733 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 420889000734 hexamer interface [polypeptide binding]; other site 420889000735 Walker A motif; other site 420889000736 ATP binding site [chemical binding]; other site 420889000737 Walker B motif; other site 420889000738 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 420889000739 Protein of unknown function (DUF964); Region: DUF964; cl01483 420889000740 Uncharacterized protein conserved in bacteria (DUF2129); Region: DUF2129; pfam09902 420889000741 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 420889000742 putative active site [active] 420889000743 putative metal binding residues [ion binding]; other site 420889000744 signature motif; other site 420889000745 putative triphosphate binding site [ion binding]; other site 420889000746 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 420889000747 synthetase active site [active] 420889000748 NTP binding site [chemical binding]; other site 420889000749 metal binding site [ion binding]; metal-binding site 420889000750 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04885 420889000751 ATP-NAD kinase; Region: NAD_kinase; pfam01513 420889000752 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 420889000753 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 420889000754 active site 420889000755 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 420889000756 active site 420889000757 lysine transporter; Provisional; Region: PRK10836 420889000758 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 420889000759 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 420889000760 substrate binding pocket [chemical binding]; other site 420889000761 membrane-bound complex binding site; other site 420889000762 hinge residues; other site 420889000763 Predicted flavoprotein [General function prediction only]; Region: COG0431 420889000764 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 420889000765 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 420889000766 ApbE family; Region: ApbE; pfam02424 420889000767 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 420889000768 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 420889000769 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 420889000770 dimer interface [polypeptide binding]; other site 420889000771 putative anticodon binding site; other site 420889000772 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 420889000773 motif 1; other site 420889000774 active site 420889000775 motif 2; other site 420889000776 motif 3; other site 420889000777 Amino acid permease; Region: AA_permease_2; pfam13520 420889000778 Predicted membrane protein [Function unknown]; Region: COG2855 420889000779 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 420889000780 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 420889000781 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 420889000782 Ligand Binding Site [chemical binding]; other site 420889000783 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 420889000784 Major Facilitator Superfamily; Region: MFS_1; pfam07690 420889000785 putative substrate translocation pore; other site 420889000786 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 420889000787 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 420889000788 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 420889000789 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 420889000790 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 420889000791 active site 420889000792 HIGH motif; other site 420889000793 dimer interface [polypeptide binding]; other site 420889000794 KMSKS motif; other site 420889000795 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 420889000796 RNA binding surface [nucleotide binding]; other site 420889000797 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 420889000798 Transglycosylase; Region: Transgly; pfam00912 420889000799 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 420889000800 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 420889000801 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 420889000802 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 420889000803 DNA binding site [nucleotide binding] 420889000804 active site 420889000805 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 420889000806 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 420889000807 DNA binding site [nucleotide binding] 420889000808 active site 420889000809 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 420889000810 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 420889000811 active site 420889000812 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 420889000813 glutamyl aminopeptidase; Region: glu_aminopep; TIGR03107 420889000814 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 420889000815 catalytic residues [active] 420889000816 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 420889000817 putative tRNA-binding site [nucleotide binding]; other site 420889000818 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 420889000819 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 420889000820 dimer interface [polypeptide binding]; other site 420889000821 ssDNA binding site [nucleotide binding]; other site 420889000822 tetramer (dimer of dimers) interface [polypeptide binding]; other site 420889000823 Protein of unknown function (DUF1706); Region: DUF1706; pfam08020 420889000824 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 420889000825 oligomerisation interface [polypeptide binding]; other site 420889000826 mobile loop; other site 420889000827 roof hairpin; other site 420889000828 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 420889000829 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 420889000830 ring oligomerisation interface [polypeptide binding]; other site 420889000831 ATP/Mg binding site [chemical binding]; other site 420889000832 stacking interactions; other site 420889000833 hinge regions; other site 420889000834 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 420889000835 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 420889000836 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 420889000837 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 420889000838 dimer interface [polypeptide binding]; other site 420889000839 phosphorylation site [posttranslational modification] 420889000840 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 420889000841 ATP binding site [chemical binding]; other site 420889000842 Mg2+ binding site [ion binding]; other site 420889000843 G-X-G motif; other site 420889000844 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 420889000845 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 420889000846 active site 420889000847 phosphorylation site [posttranslational modification] 420889000848 intermolecular recognition site; other site 420889000849 dimerization interface [polypeptide binding]; other site 420889000850 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 420889000851 DNA binding site [nucleotide binding] 420889000852 thymidylate kinase; Validated; Region: tmk; PRK00698 420889000853 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 420889000854 TMP-binding site; other site 420889000855 ATP-binding site [chemical binding]; other site 420889000856 DNA polymerase III subunit delta'; Validated; Region: PRK07276 420889000857 DNA polymerase III subunit delta'; Validated; Region: PRK08485 420889000858 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 420889000859 Regulator of replication initiation timing [Replication, recombination, and repair]; Region: COG4467; cl01853 420889000860 Predicted methyltransferases [General function prediction only]; Region: COG0313 420889000861 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 420889000862 putative SAM binding site [chemical binding]; other site 420889000863 putative homodimer interface [polypeptide binding]; other site 420889000864 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 420889000865 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 420889000866 substrate binding pocket [chemical binding]; other site 420889000867 membrane-bound complex binding site; other site 420889000868 hinge residues; other site 420889000869 mevalonate kinase; Region: mevalon_kin; TIGR00549 420889000870 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 420889000871 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 420889000872 Ligand Binding Site [chemical binding]; other site 420889000873 Mevalonate pyrophosphate decarboxylase [Lipid metabolism]; Region: MVD1; COG3407 420889000874 diphosphomevalonate decarboxylase; Region: PLN02407 420889000875 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 420889000876 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 420889000877 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 420889000878 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 420889000879 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 420889000880 homotetramer interface [polypeptide binding]; other site 420889000881 FMN binding site [chemical binding]; other site 420889000882 homodimer contacts [polypeptide binding]; other site 420889000883 putative active site [active] 420889000884 putative substrate binding site [chemical binding]; other site 420889000885 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 420889000886 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 420889000887 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 420889000888 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 420889000889 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 420889000890 ATP binding site [chemical binding]; other site 420889000891 Mg++ binding site [ion binding]; other site 420889000892 motif III; other site 420889000893 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 420889000894 nucleotide binding region [chemical binding]; other site 420889000895 ATP-binding site [chemical binding]; other site 420889000896 Uncharacterized conserved protein [Function unknown]; Region: COG1434 420889000897 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 420889000898 putative active site [active] 420889000899 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 420889000900 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 420889000901 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 420889000902 putative active site [active] 420889000903 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 420889000904 active site 420889000905 P-loop; other site 420889000906 phosphorylation site [posttranslational modification] 420889000907 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 420889000908 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 420889000909 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 420889000910 beta-galactosidase; Region: BGL; TIGR03356 420889000911 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 420889000912 beta-galactosidase; Region: BGL; TIGR03356 420889000913 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 420889000914 active site 420889000915 P-loop; other site 420889000916 phosphorylation site [posttranslational modification] 420889000917 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 420889000918 active site 420889000919 methionine cluster; other site 420889000920 phosphorylation site [posttranslational modification] 420889000921 metal binding site [ion binding]; metal-binding site 420889000922 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 420889000923 catalytic residue [active] 420889000924 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 420889000925 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 420889000926 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 420889000927 Walker A/P-loop; other site 420889000928 ATP binding site [chemical binding]; other site 420889000929 Q-loop/lid; other site 420889000930 ABC transporter signature motif; other site 420889000931 Walker B; other site 420889000932 D-loop; other site 420889000933 H-loop/switch region; other site 420889000934 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 420889000935 Transglycosylase; Region: Transgly; pfam00912 420889000936 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 420889000937 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 420889000938 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 420889000939 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 420889000940 nucleotide binding pocket [chemical binding]; other site 420889000941 K-X-D-G motif; other site 420889000942 catalytic site [active] 420889000943 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 420889000944 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 420889000945 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 420889000946 Dimer interface [polypeptide binding]; other site 420889000947 BRCT sequence motif; other site 420889000948 putative lipid kinase; Reviewed; Region: PRK13055 420889000949 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 420889000950 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 420889000951 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 420889000952 Walker A/P-loop; other site 420889000953 ATP binding site [chemical binding]; other site 420889000954 Q-loop/lid; other site 420889000955 ABC transporter signature motif; other site 420889000956 Walker B; other site 420889000957 D-loop; other site 420889000958 H-loop/switch region; other site 420889000959 TOBE domain; Region: TOBE_2; pfam08402 420889000960 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 420889000961 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 420889000962 dimer interface [polypeptide binding]; other site 420889000963 PYR/PP interface [polypeptide binding]; other site 420889000964 TPP binding site [chemical binding]; other site 420889000965 substrate binding site [chemical binding]; other site 420889000966 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 420889000967 Domain of unknown function; Region: EKR; cl11037 420889000968 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 420889000969 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 420889000970 TPP-binding site [chemical binding]; other site 420889000971 Uncharacterized conserved protein [Function unknown]; Region: COG1624 420889000972 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 420889000973 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 420889000974 YbbR-like protein; Region: YbbR; pfam07949 420889000975 YbbR-like protein; Region: YbbR; pfam07949 420889000976 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 420889000977 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 420889000978 active site 420889000979 substrate binding site [chemical binding]; other site 420889000980 metal binding site [ion binding]; metal-binding site 420889000981 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 420889000982 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 420889000983 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 420889000984 Coenzyme A binding pocket [chemical binding]; other site 420889000985 Transcriptional regulator [Transcription]; Region: LytR; COG1316 420889000986 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 420889000987 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 420889000988 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 420889000989 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 420889000990 non-specific DNA binding site [nucleotide binding]; other site 420889000991 salt bridge; other site 420889000992 sequence-specific DNA binding site [nucleotide binding]; other site 420889000993 Lactococcus bacteriophage repressor; Region: Lac_bphage_repr; pfam06543 420889000994 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 420889000995 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 420889000996 dimerization interface 3.5A [polypeptide binding]; other site 420889000997 active site 420889000998 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 420889000999 dimer interface [polypeptide binding]; other site 420889001000 pyridoxal binding site [chemical binding]; other site 420889001001 ATP binding site [chemical binding]; other site 420889001002 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 420889001003 hypothetical protein; Provisional; Region: PRK13690 420889001004 CTP synthetase; Validated; Region: pyrG; PRK05380 420889001005 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 420889001006 Catalytic site [active] 420889001007 active site 420889001008 UTP binding site [chemical binding]; other site 420889001009 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 420889001010 active site 420889001011 putative oxyanion hole; other site 420889001012 catalytic triad [active] 420889001013 maltose O-acetyltransferase; Provisional; Region: PRK10092 420889001014 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 420889001015 active site 420889001016 substrate binding site [chemical binding]; other site 420889001017 trimer interface [polypeptide binding]; other site 420889001018 CoA binding site [chemical binding]; other site 420889001019 Protein of unknown function (DUF2929); Region: DUF2929; pfam11151 420889001020 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK07279 420889001021 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 420889001022 active site 420889001023 PHP Thumb interface [polypeptide binding]; other site 420889001024 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 420889001025 generic binding surface II; other site 420889001026 generic binding surface I; other site 420889001027 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 420889001028 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 420889001029 EDD domain protein, DegV family; Region: DegV; TIGR00762 420889001030 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 420889001031 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 420889001032 active site 420889001033 catalytic triad [active] 420889001034 oxyanion hole [active] 420889001035 Uncharacterized protein conserved in bacteria (DUF2140); Region: DUF2140; pfam09911 420889001036 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 420889001037 IHF dimer interface [polypeptide binding]; other site 420889001038 IHF - DNA interface [nucleotide binding]; other site 420889001039 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 420889001040 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 420889001041 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 420889001042 catalytic residue [active] 420889001043 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 420889001044 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 420889001045 dimer interface [polypeptide binding]; other site 420889001046 pyridoxal 5'-phosphate binding site [chemical binding]; other site 420889001047 catalytic residue [active] 420889001048 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 420889001049 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 420889001050 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 420889001051 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 420889001052 Transglycosylase; Region: Transgly; pfam00912 420889001053 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 420889001054 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 420889001055 Holliday junction-specific endonuclease; Reviewed; Region: recU; PRK02234 420889001056 hypothetical protein; Provisional; Region: PRK13660 420889001057 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 420889001058 ArsC family; Region: ArsC; pfam03960 420889001059 putative catalytic residues [active] 420889001060 thiol/disulfide switch; other site 420889001061 hypothetical protein; Provisional; Region: PRK04387 420889001062 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 420889001063 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 420889001064 active site 420889001065 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 420889001066 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 420889001067 hinge; other site 420889001068 active site 420889001069 trigger factor; Provisional; Region: tig; PRK01490 420889001070 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 420889001071 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 420889001072 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 420889001073 dimerization interface [polypeptide binding]; other site 420889001074 putative DNA binding site [nucleotide binding]; other site 420889001075 putative Zn2+ binding site [ion binding]; other site 420889001076 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 420889001077 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 420889001078 potential catalytic triad [active] 420889001079 conserved cys residue [active] 420889001080 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 420889001081 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 420889001082 NAD(P) binding site [chemical binding]; other site 420889001083 active site 420889001084 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 420889001085 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 420889001086 motif II; other site 420889001087 ribonuclease Z; Region: RNase_Z; TIGR02651 420889001088 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 420889001089 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 420889001090 NAD(P) binding site [chemical binding]; other site 420889001091 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 420889001092 NAD(P) binding site [chemical binding]; other site 420889001093 active site 420889001094 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 420889001095 DHH family; Region: DHH; pfam01368 420889001096 DHHA1 domain; Region: DHHA1; pfam02272 420889001097 Single-strand DNA-specific exonuclease, C terminal domain; Region: ssDNA-exonuc_C; cl11538 420889001098 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 420889001099 active site 420889001100 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; pfam05066 420889001101 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 420889001102 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 420889001103 dimerization interface [polypeptide binding]; other site 420889001104 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 420889001105 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 420889001106 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 420889001107 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; cl01850 420889001108 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 420889001109 Clp amino terminal domain; Region: Clp_N; pfam02861 420889001110 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 420889001111 Walker A motif; other site 420889001112 ATP binding site [chemical binding]; other site 420889001113 Walker B motif; other site 420889001114 arginine finger; other site 420889001115 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 420889001116 Walker A motif; other site 420889001117 ATP binding site [chemical binding]; other site 420889001118 Walker B motif; other site 420889001119 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 420889001120 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 420889001121 30S subunit binding site; other site 420889001122 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 420889001123 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 420889001124 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 420889001125 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 420889001126 CoA-binding site [chemical binding]; other site 420889001127 ATP-binding [chemical binding]; other site 420889001128 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 420889001129 drug efflux system protein MdtG; Provisional; Region: PRK09874 420889001130 putative substrate translocation pore; other site 420889001131 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 420889001132 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 420889001133 pyruvate carboxylase; Reviewed; Region: PRK12999 420889001134 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 420889001135 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 420889001136 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 420889001137 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 420889001138 active site 420889001139 catalytic residues [active] 420889001140 metal binding site [ion binding]; metal-binding site 420889001141 homodimer binding site [polypeptide binding]; other site 420889001142 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 420889001143 carboxyltransferase (CT) interaction site; other site 420889001144 biotinylation site [posttranslational modification]; other site 420889001145 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 420889001146 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 420889001147 oligomer interface [polypeptide binding]; other site 420889001148 active site residues [active] 420889001149 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 420889001150 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 420889001151 putative metal binding site [ion binding]; other site 420889001152 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 420889001153 ArsC family; Region: ArsC; pfam03960 420889001154 putative catalytic residues [active] 420889001155 thiol/disulfide switch; other site 420889001156 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 420889001157 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 420889001158 active site 420889001159 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 420889001160 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 420889001161 putative active site [active] 420889001162 putative metal binding site [ion binding]; other site 420889001163 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 420889001164 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 420889001165 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 420889001166 Walker A/P-loop; other site 420889001167 ATP binding site [chemical binding]; other site 420889001168 Q-loop/lid; other site 420889001169 ABC transporter signature motif; other site 420889001170 Walker B; other site 420889001171 D-loop; other site 420889001172 H-loop/switch region; other site 420889001173 inner membrane transport permease; Provisional; Region: PRK15066 420889001174 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 420889001175 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 420889001176 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 420889001177 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 420889001178 S-adenosylmethionine binding site [chemical binding]; other site 420889001179 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 420889001180 putative uracil binding site [chemical binding]; other site 420889001181 putative active site [active] 420889001182 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 420889001183 Coenzyme A binding pocket [chemical binding]; other site 420889001184 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 420889001185 Domain of unknown function DUF20; Region: UPF0118; pfam01594 420889001186 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 420889001187 Domain of unknown function DUF21; Region: DUF21; pfam01595 420889001188 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 420889001189 Transporter associated domain; Region: CorC_HlyC; smart01091 420889001190 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 420889001191 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 420889001192 putative substrate translocation pore; other site 420889001193 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 420889001194 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 420889001195 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 420889001196 FeS/SAM binding site; other site 420889001197 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 420889001198 DHH family; Region: DHH; pfam01368 420889001199 DHHA2 domain; Region: DHHA2; pfam02833 420889001200 Domain of unknown function (DUF1803); Region: DUF1803; pfam08820 420889001201 Domain of unknown function (DUF1803); Region: DUF1803; pfam08820 420889001202 peptidase T; Region: peptidase-T; TIGR01882 420889001203 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 420889001204 metal binding site [ion binding]; metal-binding site 420889001205 dimer interface [polypeptide binding]; other site 420889001206 inner membrane transporter YjeM; Provisional; Region: PRK15238 420889001207 UDP-N-acetylmuramoylalanyl-D-glutamate--L-lysine ligase; Provisional; Region: PRK14022 420889001208 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 420889001209 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 420889001210 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 420889001211 Helix-turn-helix domain; Region: HTH_19; pfam12844 420889001212 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 420889001213 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 420889001214 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 420889001215 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 420889001216 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 420889001217 active site 420889001218 Zn binding site [ion binding]; other site 420889001219 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 420889001220 active site 420889001221 DNA binding site [nucleotide binding] 420889001222 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 420889001223 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 420889001224 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 420889001225 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 420889001226 RPB1 interaction site [polypeptide binding]; other site 420889001227 RPB10 interaction site [polypeptide binding]; other site 420889001228 RPB11 interaction site [polypeptide binding]; other site 420889001229 RPB3 interaction site [polypeptide binding]; other site 420889001230 RPB12 interaction site [polypeptide binding]; other site 420889001231 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 420889001232 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 420889001233 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 420889001234 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 420889001235 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 420889001236 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 420889001237 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 420889001238 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 420889001239 G-loop; other site 420889001240 DNA binding site [nucleotide binding] 420889001241 lipid kinase, YegS/Rv2252/BmrU family; Region: TIGR00147 420889001242 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 420889001243 Negative regulator of genetic competence (MecA); Region: MecA; cl02022 420889001244 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 420889001245 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 420889001246 Mg++ binding site [ion binding]; other site 420889001247 putative catalytic motif [active] 420889001248 substrate binding site [chemical binding]; other site 420889001249 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 420889001250 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 420889001251 Walker A/P-loop; other site 420889001252 ATP binding site [chemical binding]; other site 420889001253 Q-loop/lid; other site 420889001254 ABC transporter signature motif; other site 420889001255 Walker B; other site 420889001256 D-loop; other site 420889001257 H-loop/switch region; other site 420889001258 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 420889001259 FeS assembly protein SufD; Region: sufD; TIGR01981 420889001260 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 420889001261 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 420889001262 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 420889001263 catalytic residue [active] 420889001264 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 420889001265 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 420889001266 trimerization site [polypeptide binding]; other site 420889001267 active site 420889001268 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 420889001269 FeS assembly protein SufB; Region: sufB; TIGR01980 420889001270 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 420889001271 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 420889001272 Walker A/P-loop; other site 420889001273 ATP binding site [chemical binding]; other site 420889001274 Q-loop/lid; other site 420889001275 ABC transporter signature motif; other site 420889001276 Walker B; other site 420889001277 D-loop; other site 420889001278 H-loop/switch region; other site 420889001279 ABC transporter; Region: ABC_tran_2; pfam12848 420889001280 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 420889001281 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 420889001282 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 420889001283 transmembrane helices; other site 420889001284 SLBB domain; Region: SLBB; pfam10531 420889001285 comEA protein; Region: comE; TIGR01259 420889001286 Helix-hairpin-helix motif; Region: HHH; pfam00633 420889001287 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 420889001288 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 420889001289 Competence protein; Region: Competence; pfam03772 420889001290 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 420889001291 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 420889001292 Predicted esterase [General function prediction only]; Region: COG0627 420889001293 S-formylglutathione hydrolase; Region: PLN02442 420889001294 F0F1 ATP synthase subunit C; Provisional; Region: PRK13466 420889001295 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 420889001296 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 420889001297 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 420889001298 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 420889001299 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 420889001300 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 420889001301 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 420889001302 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 420889001303 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 420889001304 beta subunit interaction interface [polypeptide binding]; other site 420889001305 Walker A motif; other site 420889001306 ATP binding site [chemical binding]; other site 420889001307 Walker B motif; other site 420889001308 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 420889001309 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 420889001310 core domain interface [polypeptide binding]; other site 420889001311 delta subunit interface [polypeptide binding]; other site 420889001312 epsilon subunit interface [polypeptide binding]; other site 420889001313 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 420889001314 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 420889001315 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 420889001316 alpha subunit interaction interface [polypeptide binding]; other site 420889001317 Walker A motif; other site 420889001318 ATP binding site [chemical binding]; other site 420889001319 Walker B motif; other site 420889001320 inhibitor binding site; inhibition site 420889001321 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 420889001322 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 420889001323 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 420889001324 gamma subunit interface [polypeptide binding]; other site 420889001325 epsilon subunit interface [polypeptide binding]; other site 420889001326 LBP interface [polypeptide binding]; other site 420889001327 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 420889001328 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 420889001329 NAD(P) binding site [chemical binding]; other site 420889001330 LDH/MDH dimer interface [polypeptide binding]; other site 420889001331 substrate binding site [chemical binding]; other site 420889001332 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 420889001333 catalytic core [active] 420889001334 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 420889001335 Transcriptional regulator of heat shock gene [Transcription]; Region: HrcA; COG1420 420889001336 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 420889001337 GrpE; Region: GrpE; pfam01025 420889001338 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 420889001339 dimer interface [polypeptide binding]; other site 420889001340 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 420889001341 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 420889001342 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 420889001343 nucleotide binding site [chemical binding]; other site 420889001344 NEF interaction site [polypeptide binding]; other site 420889001345 SBD interface [polypeptide binding]; other site 420889001346 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 420889001347 ArsC family; Region: ArsC; pfam03960 420889001348 putative catalytic residues [active] 420889001349 thiol/disulfide switch; other site 420889001350 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 420889001351 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 420889001352 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 420889001353 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 420889001354 putative substrate binding site [chemical binding]; other site 420889001355 putative ATP binding site [chemical binding]; other site 420889001356 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 420889001357 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 420889001358 active site 420889001359 phosphorylation site [posttranslational modification] 420889001360 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 420889001361 active site 420889001362 P-loop; other site 420889001363 phosphorylation site [posttranslational modification] 420889001364 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 420889001365 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 420889001366 Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]; Region: COG1399 420889001367 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 420889001368 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 420889001369 active site 420889001370 phosphorylation site [posttranslational modification] 420889001371 intermolecular recognition site; other site 420889001372 dimerization interface [polypeptide binding]; other site 420889001373 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 420889001374 DNA binding site [nucleotide binding] 420889001375 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 420889001376 HAMP domain; Region: HAMP; pfam00672 420889001377 dimerization interface [polypeptide binding]; other site 420889001378 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 420889001379 dimer interface [polypeptide binding]; other site 420889001380 phosphorylation site [posttranslational modification] 420889001381 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 420889001382 ATP binding site [chemical binding]; other site 420889001383 Mg2+ binding site [ion binding]; other site 420889001384 G-X-G motif; other site 420889001385 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 420889001386 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 420889001387 substrate binding pocket [chemical binding]; other site 420889001388 membrane-bound complex binding site; other site 420889001389 hinge residues; other site 420889001390 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 420889001391 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 420889001392 dimer interface [polypeptide binding]; other site 420889001393 conserved gate region; other site 420889001394 putative PBP binding loops; other site 420889001395 ABC-ATPase subunit interface; other site 420889001396 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 420889001397 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 420889001398 Walker A/P-loop; other site 420889001399 ATP binding site [chemical binding]; other site 420889001400 Q-loop/lid; other site 420889001401 ABC transporter signature motif; other site 420889001402 Walker B; other site 420889001403 D-loop; other site 420889001404 H-loop/switch region; other site 420889001405 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 420889001406 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 420889001407 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 420889001408 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 420889001409 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 420889001410 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 420889001411 active site 420889001412 homodimer interface [polypeptide binding]; other site 420889001413 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 420889001414 Cell division protein FtsQ; Region: FtsQ; pfam03799 420889001415 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 420889001416 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 420889001417 Walker A/P-loop; other site 420889001418 ATP binding site [chemical binding]; other site 420889001419 Q-loop/lid; other site 420889001420 ABC transporter signature motif; other site 420889001421 Walker B; other site 420889001422 D-loop; other site 420889001423 H-loop/switch region; other site 420889001424 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 420889001425 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 420889001426 substrate binding pocket [chemical binding]; other site 420889001427 membrane-bound complex binding site; other site 420889001428 hinge residues; other site 420889001429 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 420889001430 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 420889001431 substrate binding pocket [chemical binding]; other site 420889001432 membrane-bound complex binding site; other site 420889001433 hinge residues; other site 420889001434 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 420889001435 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 420889001436 dimer interface [polypeptide binding]; other site 420889001437 conserved gate region; other site 420889001438 putative PBP binding loops; other site 420889001439 ABC-ATPase subunit interface; other site 420889001440 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 420889001441 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 420889001442 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 420889001443 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 420889001444 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 420889001445 shikimate binding site; other site 420889001446 NAD(P) binding site [chemical binding]; other site 420889001447 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 420889001448 active site 420889001449 dimer interface [polypeptide binding]; other site 420889001450 metal binding site [ion binding]; metal-binding site 420889001451 Protein of unknown function (DUF1697); Region: DUF1697; cl01557 420889001452 potential frameshift: common BLAST hit: gi|134093279|ref|YP_001098362.1| orotate transporter 420889001453 Protein of unknown function, DUF606; Region: DUF606; pfam04657 420889001454 Protein of unknown function, DUF606; Region: DUF606; pfam04657 420889001455 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4493 420889001456 Protein of unknown function (DUF1054); Region: DUF1054; pfam06335 420889001457 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 420889001458 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 420889001459 Tetramer interface [polypeptide binding]; other site 420889001460 active site 420889001461 FMN-binding site [chemical binding]; other site 420889001462 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5294 420889001463 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 420889001464 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 420889001465 Walker A/P-loop; other site 420889001466 ATP binding site [chemical binding]; other site 420889001467 Q-loop/lid; other site 420889001468 ABC transporter signature motif; other site 420889001469 Walker B; other site 420889001470 D-loop; other site 420889001471 H-loop/switch region; other site 420889001472 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 420889001473 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 420889001474 active site 420889001475 phosphorylation site [posttranslational modification] 420889001476 intermolecular recognition site; other site 420889001477 dimerization interface [polypeptide binding]; other site 420889001478 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 420889001479 DNA binding site [nucleotide binding] 420889001480 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 420889001481 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 420889001482 ATP binding site [chemical binding]; other site 420889001483 Mg2+ binding site [ion binding]; other site 420889001484 G-X-G motif; other site 420889001485 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 420889001486 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 420889001487 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 420889001488 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 420889001489 hinge; other site 420889001490 active site 420889001491 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 420889001492 shikimate kinase; Reviewed; Region: aroK; PRK00131 420889001493 ADP binding site [chemical binding]; other site 420889001494 magnesium binding site [ion binding]; other site 420889001495 putative shikimate binding site; other site 420889001496 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 420889001497 catalytic core [active] 420889001498 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 420889001499 AAA domain; Region: AAA_30; pfam13604 420889001500 Family description; Region: UvrD_C_2; pfam13538 420889001501 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 420889001502 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 420889001503 Zn2+ binding site [ion binding]; other site 420889001504 Mg2+ binding site [ion binding]; other site 420889001505 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 420889001506 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 420889001507 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 420889001508 ligand binding site [chemical binding]; other site 420889001509 active site 420889001510 UGI interface [polypeptide binding]; other site 420889001511 catalytic site [active] 420889001512 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 420889001513 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 420889001514 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 420889001515 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 420889001516 active site 420889001517 motif I; other site 420889001518 motif II; other site 420889001519 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 420889001520 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 420889001521 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 420889001522 putative active site [active] 420889001523 Competence protein CoiA-like family; Region: CoiA; cl11541 420889001524 Oligoendopeptidase F [Amino acid transport and metabolism]; Region: COG1164 420889001525 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 420889001526 active site 420889001527 Zn binding site [ion binding]; other site 420889001528 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 420889001529 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 420889001530 S-adenosylmethionine binding site [chemical binding]; other site 420889001531 foldase protein PrsA; Reviewed; Region: prsA; PRK01326 420889001532 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 420889001533 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 420889001534 motif 1; other site 420889001535 active site 420889001536 motif 2; other site 420889001537 motif 3; other site 420889001538 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 420889001539 DHHA1 domain; Region: DHHA1; pfam02272 420889001540 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 420889001541 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 420889001542 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 420889001543 putative active site [active] 420889001544 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 420889001545 catalytic core [active] 420889001546 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 420889001547 beta-galactosidase; Region: BGL; TIGR03356 420889001548 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 420889001549 SmpB-tmRNA interface; other site 420889001550 PBP superfamily domain; Region: PBP_like_2; cl17296 420889001551 PBP superfamily domain; Region: PBP_like_2; cl17296 420889001552 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 420889001553 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 420889001554 dimer interface [polypeptide binding]; other site 420889001555 conserved gate region; other site 420889001556 putative PBP binding loops; other site 420889001557 ABC-ATPase subunit interface; other site 420889001558 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 420889001559 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 420889001560 dimer interface [polypeptide binding]; other site 420889001561 conserved gate region; other site 420889001562 putative PBP binding loops; other site 420889001563 ABC-ATPase subunit interface; other site 420889001564 phosphate transporter ATP-binding protein; Provisional; Region: PRK14237 420889001565 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 420889001566 Walker A/P-loop; other site 420889001567 ATP binding site [chemical binding]; other site 420889001568 Q-loop/lid; other site 420889001569 ABC transporter signature motif; other site 420889001570 Walker B; other site 420889001571 D-loop; other site 420889001572 H-loop/switch region; other site 420889001573 phosphate transporter ATP-binding protein; Provisional; Region: PRK14239 420889001574 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 420889001575 Walker A/P-loop; other site 420889001576 ATP binding site [chemical binding]; other site 420889001577 Q-loop/lid; other site 420889001578 ABC transporter signature motif; other site 420889001579 Walker B; other site 420889001580 D-loop; other site 420889001581 H-loop/switch region; other site 420889001582 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 420889001583 PhoU domain; Region: PhoU; pfam01895 420889001584 PhoU domain; Region: PhoU; pfam01895 420889001585 seryl-tRNA synthetase; Provisional; Region: PRK05431 420889001586 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 420889001587 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 420889001588 dimer interface [polypeptide binding]; other site 420889001589 active site 420889001590 motif 1; other site 420889001591 motif 2; other site 420889001592 motif 3; other site 420889001593 Uncharacterized conserved protein [Function unknown]; Region: COG1284 420889001594 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 420889001595 Domain of unknown function (DUF956); Region: DUF956; cl01917 420889001596 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 420889001597 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 420889001598 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 420889001599 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 420889001600 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 420889001601 active pocket/dimerization site; other site 420889001602 active site 420889001603 phosphorylation site [posttranslational modification] 420889001604 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 420889001605 active site 420889001606 phosphorylation site [posttranslational modification] 420889001607 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 420889001608 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 420889001609 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 420889001610 cytidylate kinase; Provisional; Region: cmk; PRK00023 420889001611 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 420889001612 CMP-binding site; other site 420889001613 The sites determining sugar specificity; other site 420889001614 Predicted acetyltransferase [General function prediction only]; Region: COG3153 420889001615 Glycopeptide antibiotics resistance protein [Defense mechanisms]; Region: VanZ; COG4767 420889001616 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 420889001617 Transcriptional regulator [Transcription]; Region: LytR; COG1316 420889001618 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 420889001619 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 420889001620 dimer interface [polypeptide binding]; other site 420889001621 conserved gate region; other site 420889001622 putative PBP binding loops; other site 420889001623 ABC-ATPase subunit interface; other site 420889001624 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 420889001625 dimer interface [polypeptide binding]; other site 420889001626 conserved gate region; other site 420889001627 ABC-ATPase subunit interface; other site 420889001628 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 420889001629 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 420889001630 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 420889001631 homodimer interface [polypeptide binding]; other site 420889001632 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 420889001633 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 420889001634 active site 420889001635 homodimer interface [polypeptide binding]; other site 420889001636 catalytic site [active] 420889001637 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 420889001638 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 420889001639 Ca binding site [ion binding]; other site 420889001640 active site 420889001641 catalytic site [active] 420889001642 maltose phosphorylase; Provisional; Region: PRK13807 420889001643 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 420889001644 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 420889001645 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 420889001646 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 420889001647 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 420889001648 motif II; other site 420889001649 Transcriptional regulators [Transcription]; Region: PurR; COG1609 420889001650 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 420889001651 DNA binding site [nucleotide binding] 420889001652 domain linker motif; other site 420889001653 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 420889001654 putative dimerization interface [polypeptide binding]; other site 420889001655 putative ligand binding site [chemical binding]; other site 420889001656 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 420889001657 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 420889001658 active site 420889001659 phosphorylation site [posttranslational modification] 420889001660 intermolecular recognition site; other site 420889001661 dimerization interface [polypeptide binding]; other site 420889001662 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 420889001663 DNA binding site [nucleotide binding] 420889001664 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 420889001665 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 420889001666 dimer interface [polypeptide binding]; other site 420889001667 phosphorylation site [posttranslational modification] 420889001668 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 420889001669 ATP binding site [chemical binding]; other site 420889001670 Mg2+ binding site [ion binding]; other site 420889001671 G-X-G motif; other site 420889001672 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK12315 420889001673 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 420889001674 TPP-binding site; other site 420889001675 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 420889001676 PYR/PP interface [polypeptide binding]; other site 420889001677 dimer interface [polypeptide binding]; other site 420889001678 TPP binding site [chemical binding]; other site 420889001679 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 420889001680 Uncharacterized conserved protein [Function unknown]; Region: COG0759 420889001681 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 420889001682 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 420889001683 Walker A/P-loop; other site 420889001684 ATP binding site [chemical binding]; other site 420889001685 Q-loop/lid; other site 420889001686 ABC transporter signature motif; other site 420889001687 Walker B; other site 420889001688 D-loop; other site 420889001689 H-loop/switch region; other site 420889001690 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 420889001691 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 420889001692 dimer interface [polypeptide binding]; other site 420889001693 putative PBP binding regions; other site 420889001694 ABC-ATPase subunit interface; other site 420889001695 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 420889001696 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 420889001697 ABC-ATPase subunit interface; other site 420889001698 dimer interface [polypeptide binding]; other site 420889001699 putative PBP binding regions; other site 420889001700 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 420889001701 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 420889001702 putative ligand binding residues [chemical binding]; other site 420889001703 MarR family; Region: MarR; pfam01047 420889001704 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 420889001705 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 420889001706 dimer interface [polypeptide binding]; other site 420889001707 active site 420889001708 CoA binding pocket [chemical binding]; other site 420889001709 acyl carrier protein; Provisional; Region: acpP; PRK00982 420889001710 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 420889001711 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 420889001712 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 420889001713 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 420889001714 NAD(P) binding site [chemical binding]; other site 420889001715 homotetramer interface [polypeptide binding]; other site 420889001716 homodimer interface [polypeptide binding]; other site 420889001717 active site 420889001718 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 420889001719 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 420889001720 dimer interface [polypeptide binding]; other site 420889001721 active site 420889001722 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 420889001723 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 420889001724 carboxyltransferase (CT) interaction site; other site 420889001725 biotinylation site [posttranslational modification]; other site 420889001726 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 420889001727 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 420889001728 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 420889001729 ATP-grasp domain; Region: ATP-grasp_4; cl17255 420889001730 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 420889001731 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 420889001732 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 420889001733 Ligand binding site; other site 420889001734 Putative Catalytic site; other site 420889001735 DXD motif; other site 420889001736 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 420889001737 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 420889001738 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 420889001739 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 420889001740 Predicted membrane protein [Function unknown]; Region: COG2261 420889001741 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 420889001742 ArsC family; Region: ArsC; pfam03960 420889001743 putative ArsC-like catalytic residues; other site 420889001744 putative TRX-like catalytic residues [active] 420889001745 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 420889001746 active site 420889001747 putative catalytic site [active] 420889001748 DNA binding site [nucleotide binding] 420889001749 putative phosphate binding site [ion binding]; other site 420889001750 metal binding site A [ion binding]; metal-binding site 420889001751 AP binding site [nucleotide binding]; other site 420889001752 metal binding site B [ion binding]; metal-binding site 420889001753 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 420889001754 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 420889001755 active site 420889001756 HIGH motif; other site 420889001757 KMSKS motif; other site 420889001758 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 420889001759 tRNA binding surface [nucleotide binding]; other site 420889001760 anticodon binding site; other site 420889001761 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 420889001762 dimer interface [polypeptide binding]; other site 420889001763 putative tRNA-binding site [nucleotide binding]; other site 420889001764 short chain dehydrogenase; Validated; Region: PRK06182 420889001765 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 420889001766 NADP binding site [chemical binding]; other site 420889001767 active site 420889001768 steroid binding site; other site 420889001769 Protein of unknown function (DUF2829); Region: DUF2829; pfam11195 420889001770 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK06550 420889001771 classical (c) SDRs; Region: SDR_c; cd05233 420889001772 NAD(P) binding site [chemical binding]; other site 420889001773 active site 420889001774 Predicted membrane protein [Function unknown]; Region: COG4708 420889001775 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 420889001776 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 420889001777 active site 420889001778 motif I; other site 420889001779 motif II; other site 420889001780 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 420889001781 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 420889001782 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 420889001783 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 420889001784 Ligand Binding Site [chemical binding]; other site 420889001785 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 420889001786 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 420889001787 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 420889001788 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 420889001789 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 420889001790 cell division protein GpsB; Provisional; Region: PRK14127 420889001791 DivIVA domain; Region: DivI1A_domain; TIGR03544 420889001792 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 420889001793 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 420889001794 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 420889001795 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 420889001796 Low molecular weight phosphatase family; Region: LMWPc; cd00115 420889001797 active site 420889001798 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 420889001799 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 420889001800 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 420889001801 active site 420889001802 catabolite control protein A; Region: ccpA; TIGR01481 420889001803 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 420889001804 DNA binding site [nucleotide binding] 420889001805 domain linker motif; other site 420889001806 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 420889001807 dimerization interface [polypeptide binding]; other site 420889001808 effector binding site; other site 420889001809 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 420889001810 DNA-binding site [nucleotide binding]; DNA binding site 420889001811 RNA-binding motif; other site 420889001812 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 420889001813 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 420889001814 active site 420889001815 catalytic residue [active] 420889001816 dimer interface [polypeptide binding]; other site 420889001817 adenylosuccinate lyase; Provisional; Region: PRK07492 420889001818 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 420889001819 tetramer interface [polypeptide binding]; other site 420889001820 active site 420889001821 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 420889001822 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 420889001823 dimerization interface [polypeptide binding]; other site 420889001824 putative DNA binding site [nucleotide binding]; other site 420889001825 putative Zn2+ binding site [ion binding]; other site 420889001826 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 420889001827 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 420889001828 Soluble P-type ATPase [General function prediction only]; Region: COG4087 420889001829 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 420889001830 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 420889001831 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 420889001832 Walker A/P-loop; other site 420889001833 ATP binding site [chemical binding]; other site 420889001834 Q-loop/lid; other site 420889001835 ABC transporter signature motif; other site 420889001836 Walker B; other site 420889001837 D-loop; other site 420889001838 H-loop/switch region; other site 420889001839 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 420889001840 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 420889001841 GIY-YIG motif/motif A; other site 420889001842 active site 420889001843 catalytic site [active] 420889001844 putative DNA binding site [nucleotide binding]; other site 420889001845 metal binding site [ion binding]; metal-binding site 420889001846 UvrB/uvrC motif; Region: UVR; pfam02151 420889001847 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 420889001848 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 420889001849 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 420889001850 minor groove reading motif; other site 420889001851 helix-hairpin-helix signature motif; other site 420889001852 substrate binding pocket [chemical binding]; other site 420889001853 active site 420889001854 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 420889001855 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 420889001856 DNA binding and oxoG recognition site [nucleotide binding] 420889001857 dipeptidase PepV; Reviewed; Region: PRK07318 420889001858 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 420889001859 active site 420889001860 metal binding site [ion binding]; metal-binding site 420889001861 Uncharacterized conserved protein [Function unknown]; Region: COG3589 420889001862 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 420889001863 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 420889001864 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 420889001865 putative active site [active] 420889001866 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 420889001867 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 420889001868 active site turn [active] 420889001869 phosphorylation site [posttranslational modification] 420889001870 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 420889001871 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 420889001872 HPr interaction site; other site 420889001873 glycerol kinase (GK) interaction site [polypeptide binding]; other site 420889001874 active site 420889001875 phosphorylation site [posttranslational modification] 420889001876 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 420889001877 alanine racemase; Reviewed; Region: alr; PRK00053 420889001878 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 420889001879 active site 420889001880 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 420889001881 dimer interface [polypeptide binding]; other site 420889001882 substrate binding site [chemical binding]; other site 420889001883 catalytic residues [active] 420889001884 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 420889001885 ArsC family; Region: ArsC; pfam03960 420889001886 putative catalytic residues [active] 420889001887 thiol/disulfide switch; other site 420889001888 nicotinamide mononucleotide transporter PnuC; Region: NMN_trans_PnuC; TIGR01528 420889001889 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 420889001890 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 420889001891 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14179 420889001892 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 420889001893 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 420889001894 homodimer interface [polypeptide binding]; other site 420889001895 NADP binding site [chemical binding]; other site 420889001896 substrate binding site [chemical binding]; other site 420889001897 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 420889001898 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 420889001899 generic binding surface II; other site 420889001900 generic binding surface I; other site 420889001901 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 420889001902 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 420889001903 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 420889001904 putative active site [active] 420889001905 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 420889001906 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 420889001907 active site 420889001908 phosphorylation site [posttranslational modification] 420889001909 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 420889001910 active site 420889001911 P-loop; other site 420889001912 phosphorylation site [posttranslational modification] 420889001913 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 420889001914 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 420889001915 alpha-mannosidase; Provisional; Region: PRK09819 420889001916 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 420889001917 active site 420889001918 metal binding site [ion binding]; metal-binding site 420889001919 catalytic site [active] 420889001920 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; cl08536 420889001921 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 420889001922 sucrose phosphorylase; Region: sucrose_gtfA; TIGR03852 420889001923 active site 420889001924 homodimer interface [polypeptide binding]; other site 420889001925 catalytic site [active] 420889001926 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 420889001927 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 420889001928 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 420889001929 substrate binding pocket [chemical binding]; other site 420889001930 chain length determination region; other site 420889001931 substrate-Mg2+ binding site; other site 420889001932 catalytic residues [active] 420889001933 aspartate-rich region 1; other site 420889001934 active site lid residues [active] 420889001935 aspartate-rich region 2; other site 420889001936 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 420889001937 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 420889001938 RNA binding surface [nucleotide binding]; other site 420889001939 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 420889001940 Arginine repressor [Transcription]; Region: ArgR; COG1438 420889001941 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 420889001942 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 420889001943 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 420889001944 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 420889001945 Walker A/P-loop; other site 420889001946 ATP binding site [chemical binding]; other site 420889001947 Q-loop/lid; other site 420889001948 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 420889001949 ABC transporter signature motif; other site 420889001950 Walker B; other site 420889001951 D-loop; other site 420889001952 H-loop/switch region; other site 420889001953 Predicted membrane protein [Function unknown]; Region: COG3152 420889001954 Protein of unknown function (DUF805); Region: DUF805; cl01224 420889001955 FemAB family; Region: FemAB; pfam02388 420889001956 FemAB family; Region: FemAB; pfam02388 420889001957 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 420889001958 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 420889001959 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 420889001960 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 420889001961 Colicin V production protein; Region: Colicin_V; pfam02674 420889001962 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 420889001963 MutS domain III; Region: MutS_III; pfam05192 420889001964 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 420889001965 Walker A/P-loop; other site 420889001966 ATP binding site [chemical binding]; other site 420889001967 Q-loop/lid; other site 420889001968 ABC transporter signature motif; other site 420889001969 Walker B; other site 420889001970 D-loop; other site 420889001971 H-loop/switch region; other site 420889001972 Smr domain; Region: Smr; pfam01713 420889001973 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 420889001974 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 420889001975 catalytic residues [active] 420889001976 Protein of unknown function (DUF2969); Region: DUF2969; pfam11184 420889001977 FemAB family; Region: FemAB; pfam02388 420889001978 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 420889001979 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 420889001980 MraW methylase family; Region: Methyltransf_5; pfam01795 420889001981 Cell division protein FtsL; Region: FtsL; cl11433 420889001982 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 420889001983 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 420889001984 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 420889001985 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 420889001986 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 420889001987 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 420889001988 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 420889001989 Mg++ binding site [ion binding]; other site 420889001990 putative catalytic motif [active] 420889001991 putative substrate binding site [chemical binding]; other site 420889001992 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 420889001993 synthetase active site [active] 420889001994 NTP binding site [chemical binding]; other site 420889001995 metal binding site [ion binding]; metal-binding site 420889001996 Response regulator receiver domain; Region: Response_reg; pfam00072 420889001997 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 420889001998 active site 420889001999 phosphorylation site [posttranslational modification] 420889002000 intermolecular recognition site; other site 420889002001 dimerization interface [polypeptide binding]; other site 420889002002 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 420889002003 HAMP domain; Region: HAMP; pfam00672 420889002004 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 420889002005 dimer interface [polypeptide binding]; other site 420889002006 phosphorylation site [posttranslational modification] 420889002007 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 420889002008 ATP binding site [chemical binding]; other site 420889002009 Mg2+ binding site [ion binding]; other site 420889002010 G-X-G motif; other site 420889002011 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 420889002012 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 420889002013 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 420889002014 substrate binding pocket [chemical binding]; other site 420889002015 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 420889002016 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 420889002017 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 420889002018 putative active site [active] 420889002019 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 420889002020 HPr interaction site; other site 420889002021 glycerol kinase (GK) interaction site [polypeptide binding]; other site 420889002022 active site 420889002023 phosphorylation site [posttranslational modification] 420889002024 bifunctional PTS system maltose and glucose-specific transporter subunits IICB; Provisional; Region: PRK10110 420889002025 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 420889002026 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 420889002027 active site turn [active] 420889002028 phosphorylation site [posttranslational modification] 420889002029 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 420889002030 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 420889002031 pyridoxal 5'-phosphate binding site [chemical binding]; other site 420889002032 homodimer interface [polypeptide binding]; other site 420889002033 catalytic residue [active] 420889002034 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 420889002035 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 420889002036 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 420889002037 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 420889002038 putative transposase OrfB; Reviewed; Region: PHA02517 420889002039 HTH-like domain; Region: HTH_21; pfam13276 420889002040 Integrase core domain; Region: rve; pfam00665 420889002041 Integrase core domain; Region: rve_3; pfam13683 420889002042 Transposase; Region: HTH_Tnp_1; pfam01527 420889002043 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 420889002044 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 420889002045 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 420889002046 active site 420889002047 intersubunit interface [polypeptide binding]; other site 420889002048 catalytic residue [active] 420889002049 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 420889002050 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 420889002051 CoenzymeA binding site [chemical binding]; other site 420889002052 subunit interaction site [polypeptide binding]; other site 420889002053 PHB binding site; other site 420889002054 potential frameshift: common BLAST hit: gi|281491223|ref|YP_003353203.1| O-succinylbenzoate synthase 420889002055 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 420889002056 metal binding site [ion binding]; metal-binding site 420889002057 substrate binding pocket [chemical binding]; other site 420889002058 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 420889002059 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 420889002060 O-succinylbenzoate-CoA ligase; Region: menE; TIGR01923 420889002061 acyl-activating enzyme (AAE) consensus motif; other site 420889002062 putative AMP binding site [chemical binding]; other site 420889002063 putative active site [active] 420889002064 putative CoA binding site [chemical binding]; other site 420889002065 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 420889002066 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 420889002067 substrate binding site [chemical binding]; other site 420889002068 oxyanion hole (OAH) forming residues; other site 420889002069 trimer interface [polypeptide binding]; other site 420889002070 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 420889002071 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 420889002072 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase [Coenzyme metabolism]; Region: MenD; COG1165 420889002073 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 420889002074 dimer interface [polypeptide binding]; other site 420889002075 tetramer interface [polypeptide binding]; other site 420889002076 PYR/PP interface [polypeptide binding]; other site 420889002077 TPP binding site [chemical binding]; other site 420889002078 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 420889002079 TPP-binding site; other site 420889002080 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 420889002081 chorismate binding enzyme; Region: Chorismate_bind; cl10555 420889002082 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 420889002083 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 420889002084 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 420889002085 DRTGG domain; Region: DRTGG; pfam07085 420889002086 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 420889002087 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 420889002088 DHH family; Region: DHH; pfam01368 420889002089 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 420889002090 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 420889002091 active site 420889002092 homotetramer interface [polypeptide binding]; other site 420889002093 homodimer interface [polypeptide binding]; other site 420889002094 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 420889002095 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 420889002096 active site 420889002097 motif I; other site 420889002098 motif II; other site 420889002099 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 420889002100 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 420889002101 putative nucleotide binding site [chemical binding]; other site 420889002102 putative metal binding site [ion binding]; other site 420889002103 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 420889002104 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 420889002105 motif II; other site 420889002106 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 420889002107 DHH family; Region: DHH; pfam01368 420889002108 DHHA1 domain; Region: DHHA1; pfam02272 420889002109 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 420889002110 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 420889002111 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 420889002112 replicative DNA helicase; Provisional; Region: PRK05748 420889002113 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 420889002114 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 420889002115 Walker A motif; other site 420889002116 ATP binding site [chemical binding]; other site 420889002117 Walker B motif; other site 420889002118 DNA binding loops [nucleotide binding] 420889002119 Uncharacterized protein conserved in bacteria [Function unknown]; Region: Veg; COG4466 420889002120 Thiamine kinase and related kinases [Coenzyme transport and metabolism]; Region: ycfN; COG0510 420889002121 Phosphotransferase enzyme family; Region: APH; pfam01636 420889002122 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 420889002123 S-adenosylmethionine binding site [chemical binding]; other site 420889002124 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 420889002125 ATP cone domain; Region: ATP-cone; pfam03477 420889002126 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 420889002127 primosomal protein DnaI; Reviewed; Region: PRK08939 420889002128 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 420889002129 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 420889002130 Walker A motif; other site 420889002131 ATP binding site [chemical binding]; other site 420889002132 Walker B motif; other site 420889002133 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 420889002134 dimer interface [polypeptide binding]; other site 420889002135 FMN binding site [chemical binding]; other site 420889002136 NADPH bind site [chemical binding]; other site 420889002137 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 420889002138 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 420889002139 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 420889002140 PRD domain; Region: PRD; pfam00874 420889002141 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 420889002142 active site 420889002143 P-loop; other site 420889002144 phosphorylation site [posttranslational modification] 420889002145 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 420889002146 active site 420889002147 phosphorylation site [posttranslational modification] 420889002148 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 420889002149 active site 420889002150 P-loop; other site 420889002151 phosphorylation site [posttranslational modification] 420889002152 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 420889002153 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 420889002154 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 420889002155 TPP-binding site [chemical binding]; other site 420889002156 dimer interface [polypeptide binding]; other site 420889002157 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 420889002158 PYR/PP interface [polypeptide binding]; other site 420889002159 dimer interface [polypeptide binding]; other site 420889002160 TPP binding site [chemical binding]; other site 420889002161 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 420889002162 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 420889002163 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 420889002164 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 420889002165 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 420889002166 putative transposase OrfB; Reviewed; Region: PHA02517 420889002167 HTH-like domain; Region: HTH_21; pfam13276 420889002168 Integrase core domain; Region: rve; pfam00665 420889002169 Integrase core domain; Region: rve_3; pfam13683 420889002170 Transposase; Region: HTH_Tnp_1; pfam01527 420889002171 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 420889002172 Bacterial protein of unknown function (DUF916); Region: DUF916; pfam06030 420889002173 WxL domain surface cell wall-binding; Region: WxL; pfam13731 420889002174 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 420889002175 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 420889002176 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 420889002177 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 420889002178 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 420889002179 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 420889002180 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 420889002181 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 420889002182 TrkA-N domain; Region: TrkA_N; pfam02254 420889002183 TrkA-C domain; Region: TrkA_C; pfam02080 420889002184 signal recognition particle protein; Provisional; Region: PRK10867 420889002185 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 420889002186 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 420889002187 P loop; other site 420889002188 GTP binding site [chemical binding]; other site 420889002189 Signal peptide binding domain; Region: SRP_SPB; pfam02978 420889002190 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 420889002191 Domain of unknown function DUF20; Region: UPF0118; pfam01594 420889002192 GTP-binding protein Der; Reviewed; Region: PRK00093 420889002193 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 420889002194 G1 box; other site 420889002195 GTP/Mg2+ binding site [chemical binding]; other site 420889002196 Switch I region; other site 420889002197 G2 box; other site 420889002198 Switch II region; other site 420889002199 G3 box; other site 420889002200 G4 box; other site 420889002201 G5 box; other site 420889002202 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 420889002203 G1 box; other site 420889002204 GTP/Mg2+ binding site [chemical binding]; other site 420889002205 Switch I region; other site 420889002206 G2 box; other site 420889002207 G3 box; other site 420889002208 Switch II region; other site 420889002209 G4 box; other site 420889002210 G5 box; other site 420889002211 CHAP domain; Region: CHAP; pfam05257 420889002212 LrgB-like family; Region: LrgB; pfam04172 420889002213 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 420889002214 ribosome maturation protein RimP; Reviewed; Region: PRK00092 420889002215 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 420889002216 putative oligomer interface [polypeptide binding]; other site 420889002217 putative RNA binding site [nucleotide binding]; other site 420889002218 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 420889002219 NusA N-terminal domain; Region: NusA_N; pfam08529 420889002220 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 420889002221 RNA binding site [nucleotide binding]; other site 420889002222 homodimer interface [polypeptide binding]; other site 420889002223 NusA-like KH domain; Region: KH_5; pfam13184 420889002224 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 420889002225 G-X-X-G motif; other site 420889002226 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 420889002227 putative RNA binding cleft [nucleotide binding]; other site 420889002228 hypothetical protein; Provisional; Region: PRK07283 420889002229 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 420889002230 translation initiation factor IF-2; Region: IF-2; TIGR00487 420889002231 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 420889002232 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 420889002233 G1 box; other site 420889002234 putative GEF interaction site [polypeptide binding]; other site 420889002235 GTP/Mg2+ binding site [chemical binding]; other site 420889002236 Switch I region; other site 420889002237 G2 box; other site 420889002238 G3 box; other site 420889002239 Switch II region; other site 420889002240 G4 box; other site 420889002241 G5 box; other site 420889002242 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 420889002243 Translation-initiation factor 2; Region: IF-2; pfam11987 420889002244 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 420889002245 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 420889002246 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 420889002247 Cation efflux family; Region: Cation_efflux; pfam01545 420889002248 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 420889002249 mannose-6-phosphate isomerase, class I; Region: manA; TIGR00218 420889002250 myosin-cross-reactive antigen; Provisional; Region: PRK13977 420889002251 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 420889002252 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 420889002253 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 420889002254 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 420889002255 ATP-binding site [chemical binding]; other site 420889002256 Sugar specificity; other site 420889002257 Pyrimidine base specificity; other site 420889002258 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 420889002259 ribonuclease III; Reviewed; Region: rnc; PRK00102 420889002260 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 420889002261 dimerization interface [polypeptide binding]; other site 420889002262 active site 420889002263 metal binding site [ion binding]; metal-binding site 420889002264 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 420889002265 dsRNA binding site [nucleotide binding]; other site 420889002266 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 420889002267 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 420889002268 Walker A/P-loop; other site 420889002269 ATP binding site [chemical binding]; other site 420889002270 Q-loop/lid; other site 420889002271 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 420889002272 Inter-Src homology 2 (iSH2) helical domain of Class IA Phosphoinositide 3-kinase Regulatory subunits; Region: iSH2_PI3K_IA_R; cl17108 420889002273 heterodimer interface [polypeptide binding]; other site 420889002274 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 420889002275 ABC transporter signature motif; other site 420889002276 Walker B; other site 420889002277 D-loop; other site 420889002278 H-loop/switch region; other site 420889002279 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 420889002280 Sulfatase; Region: Sulfatase; pfam00884 420889002281 conserved hypothetical integral membrane protein; Region: TIGR03766 420889002282 YibE/F-like protein; Region: YibE_F; cl02259 420889002283 YibE/F-like protein; Region: YibE_F; cl02259 420889002284 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 420889002285 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 420889002286 active site 420889002287 motif I; other site 420889002288 motif II; other site 420889002289 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 420889002290 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 420889002291 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 420889002292 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 420889002293 P loop; other site 420889002294 GTP binding site [chemical binding]; other site 420889002295 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02269 420889002296 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 420889002297 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 420889002298 active site 420889002299 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 420889002300 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 420889002301 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 420889002302 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 420889002303 HIGH motif; other site 420889002304 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 420889002305 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 420889002306 active site 420889002307 KMSKS motif; other site 420889002308 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 420889002309 tRNA binding surface [nucleotide binding]; other site 420889002310 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 420889002311 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 420889002312 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 420889002313 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 420889002314 Domain of unknown function DUF20; Region: UPF0118; pfam01594 420889002315 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4918 420889002316 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 420889002317 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 420889002318 Predicted membrane protein [Function unknown]; Region: COG2259 420889002319 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Provisional; Region: PRK13387 420889002320 UbiA prenyltransferase family; Region: UbiA; pfam01040 420889002321 AMP-binding enzyme; Region: AMP-binding; pfam00501 420889002322 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 420889002323 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 420889002324 acyl-activating enzyme (AAE) consensus motif; other site 420889002325 acyl-activating enzyme (AAE) consensus motif; other site 420889002326 AMP binding site [chemical binding]; other site 420889002327 active site 420889002328 CoA binding site [chemical binding]; other site 420889002329 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 420889002330 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 420889002331 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 420889002332 putative L-serine binding site [chemical binding]; other site 420889002333 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 420889002334 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 420889002335 Predicted transcriptional regulator [Transcription]; Region: COG3682 420889002336 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 420889002337 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 420889002338 metal-binding site [ion binding] 420889002339 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 420889002340 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 420889002341 metal-binding site [ion binding] 420889002342 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 420889002343 Soluble P-type ATPase [General function prediction only]; Region: COG4087 420889002344 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 420889002345 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 420889002346 ATP binding site [chemical binding]; other site 420889002347 putative Mg++ binding site [ion binding]; other site 420889002348 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 420889002349 nucleotide binding region [chemical binding]; other site 420889002350 ATP-binding site [chemical binding]; other site 420889002351 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 420889002352 HRDC domain; Region: HRDC; pfam00570 420889002353 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 420889002354 active site 420889002355 dimer interface [polypeptide binding]; other site 420889002356 catalytic nucleophile [active] 420889002357 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 420889002358 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 420889002359 glycine reductase, selenoprotein B; Region: gly_red_sel_B; TIGR01917 420889002360 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 420889002361 dipeptidase, putative; Region: dipeptidaselike; TIGR01887 420889002362 active site 420889002363 metal binding site [ion binding]; metal-binding site 420889002364 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 420889002365 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 420889002366 DNA-binding site [nucleotide binding]; DNA binding site 420889002367 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 420889002368 putative transposase OrfB; Reviewed; Region: PHA02517 420889002369 HTH-like domain; Region: HTH_21; pfam13276 420889002370 Integrase core domain; Region: rve; pfam00665 420889002371 Integrase core domain; Region: rve_3; pfam13683 420889002372 Transposase; Region: HTH_Tnp_1; pfam01527 420889002373 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 420889002374 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 420889002375 MarR family; Region: MarR_2; pfam12802 420889002376 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 420889002377 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 420889002378 putative substrate translocation pore; other site 420889002379 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 420889002380 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 420889002381 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 420889002382 putative active site [active] 420889002383 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 420889002384 Major Facilitator Superfamily; Region: MFS_1; pfam07690 420889002385 putative substrate translocation pore; other site 420889002386 phosphopentomutase; Provisional; Region: PRK05362 420889002387 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 420889002388 Putative zinc ribbon domain; Region: Zn_ribbon_2; pfam12674 420889002389 purine nucleoside phosphorylase; Provisional; Region: PRK08202 420889002390 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 420889002391 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 420889002392 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 420889002393 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 420889002394 Potassium binding sites [ion binding]; other site 420889002395 Cesium cation binding sites [ion binding]; other site 420889002396 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 420889002397 dimer interface [polypeptide binding]; other site 420889002398 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 420889002399 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 420889002400 substrate binding pocket [chemical binding]; other site 420889002401 membrane-bound complex binding site; other site 420889002402 hinge residues; other site 420889002403 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 420889002404 dimer interface [polypeptide binding]; other site 420889002405 conserved gate region; other site 420889002406 putative PBP binding loops; other site 420889002407 ABC-ATPase subunit interface; other site 420889002408 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 420889002409 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 420889002410 Walker A/P-loop; other site 420889002411 ATP binding site [chemical binding]; other site 420889002412 Q-loop/lid; other site 420889002413 ABC transporter signature motif; other site 420889002414 Walker B; other site 420889002415 D-loop; other site 420889002416 H-loop/switch region; other site 420889002417 Protein of unknown function (DUF4059); Region: DUF4059; pfam13268 420889002418 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 420889002419 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 420889002420 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 420889002421 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 420889002422 Predicted esterase [General function prediction only]; Region: COG0400 420889002423 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 420889002424 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 420889002425 Zn binding site [ion binding]; other site 420889002426 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 420889002427 Zn binding site [ion binding]; other site 420889002428 inner membrane transporter YjeM; Provisional; Region: PRK15238 420889002429 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 420889002430 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 420889002431 nudix motif; other site 420889002432 ribonuclease R; Region: RNase_R; TIGR02063 420889002433 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 420889002434 RNB domain; Region: RNB; pfam00773 420889002435 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 420889002436 RNA binding site [nucleotide binding]; other site 420889002437 Isochorismatase family; Region: Isochorismatase; pfam00857 420889002438 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 420889002439 catalytic triad [active] 420889002440 conserved cis-peptide bond; other site 420889002441 Predicted membrane protein [Function unknown]; Region: COG2261 420889002442 Small integral membrane protein [Function unknown]; Region: COG5547 420889002443 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 420889002444 Predicted membrane protein (DUF2177); Region: DUF2177; cl02014 420889002445 Predicted kinase related to dihydroxyacetone kinase [General function prediction only]; Region: COG1461 420889002446 DAK2 domain; Region: Dak2; pfam02734 420889002447 EDD domain protein, DegV family; Region: DegV; TIGR00762 420889002448 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 420889002449 Steroid 5-alpha reductase family enzyme [General function prediction only]; Region: COG3752 420889002450 Transcriptional regulators [Transcription]; Region: PurR; COG1609 420889002451 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 420889002452 DNA binding site [nucleotide binding] 420889002453 domain linker motif; other site 420889002454 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 420889002455 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 420889002456 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 420889002457 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 420889002458 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 420889002459 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 420889002460 ABC transporter; Region: ABC_tran_2; pfam12848 420889002461 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 420889002462 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 420889002463 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 420889002464 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 420889002465 putative active site [active] 420889002466 catalytic site [active] 420889002467 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 420889002468 putative active site [active] 420889002469 catalytic site [active] 420889002470 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 420889002471 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 420889002472 Family of CofD-like proteins and proteins related to YvcK; Region: CofD_YvcK; cd07044 420889002473 dimer interface [polypeptide binding]; other site 420889002474 phosphate binding site [ion binding]; other site 420889002475 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 420889002476 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 420889002477 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 420889002478 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 420889002479 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 420889002480 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 420889002481 Walker A/P-loop; other site 420889002482 ATP binding site [chemical binding]; other site 420889002483 Q-loop/lid; other site 420889002484 ABC transporter signature motif; other site 420889002485 Walker B; other site 420889002486 D-loop; other site 420889002487 H-loop/switch region; other site 420889002488 Putative exporter of polyketide antibiotics [Cell envelope biogenesis, outer membrane]; Region: TnrB3; COG3559 420889002489 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 420889002490 hypothetical protein; Provisional; Region: PRK13662 420889002491 putative phosphoesterase; Region: acc_ester; TIGR03729 420889002492 Chloramphenicol acetyltransferase; Region: CAT; cl02008 420889002493 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 420889002494 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 420889002495 active site residue [active] 420889002496 sugar phosphate phosphatase; Provisional; Region: PRK10513 420889002497 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 420889002498 active site 420889002499 motif I; other site 420889002500 motif II; other site 420889002501 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 420889002502 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 420889002503 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 420889002504 Zn2+ binding site [ion binding]; other site 420889002505 Mg2+ binding site [ion binding]; other site 420889002506 Domain of unknown function (DUF1934); Region: DUF1934; cl01870 420889002507 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 420889002508 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 420889002509 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 420889002510 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 420889002511 hypothetical protein; Provisional; Region: PRK14553 420889002512 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 420889002513 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 420889002514 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 420889002515 hexamer interface [polypeptide binding]; other site 420889002516 ligand binding site [chemical binding]; other site 420889002517 putative active site [active] 420889002518 NAD(P) binding site [chemical binding]; other site 420889002519 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 420889002520 PhoH-like protein; Region: PhoH; pfam02562 420889002521 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 420889002522 nudix motif; other site 420889002523 metal-binding heat shock protein; Provisional; Region: PRK00016 420889002524 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 420889002525 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 420889002526 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 420889002527 active site 420889002528 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 420889002529 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 420889002530 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 420889002531 ATP binding site [chemical binding]; other site 420889002532 putative Mg++ binding site [ion binding]; other site 420889002533 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 420889002534 nucleotide binding region [chemical binding]; other site 420889002535 ATP-binding site [chemical binding]; other site 420889002536 Uncharacterized conserved protein [Function unknown]; Region: COG1739 420889002537 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 420889002538 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 420889002539 hypothetical protein; Provisional; Region: PRK14013 420889002540 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 420889002541 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 420889002542 Formate/nitrite family of transporters [Inorganic ion transport and metabolism]; Region: FocA; COG2116 420889002543 glycyl-tRNA synthetase subunit alpha; Validated; Region: glyQ; PRK09348 420889002544 motif 1; other site 420889002545 dimer interface [polypeptide binding]; other site 420889002546 active site 420889002547 motif 2; other site 420889002548 motif 3; other site 420889002549 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 420889002550 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 420889002551 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4224 420889002552 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 420889002553 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 420889002554 putative Cl- selectivity filter; other site 420889002555 putative pore gating glutamate residue; other site 420889002556 Mga helix-turn-helix domain; Region: Mga; pfam05043 420889002557 glycerol kinase; Provisional; Region: glpK; PRK00047 420889002558 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 420889002559 N- and C-terminal domain interface [polypeptide binding]; other site 420889002560 active site 420889002561 MgATP binding site [chemical binding]; other site 420889002562 catalytic site [active] 420889002563 metal binding site [ion binding]; metal-binding site 420889002564 glycerol binding site [chemical binding]; other site 420889002565 homotetramer interface [polypeptide binding]; other site 420889002566 homodimer interface [polypeptide binding]; other site 420889002567 FBP binding site [chemical binding]; other site 420889002568 protein IIAGlc interface [polypeptide binding]; other site 420889002569 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 420889002570 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 420889002571 amphipathic channel; other site 420889002572 Asn-Pro-Ala signature motifs; other site 420889002573 putative PTS system transporter subunits IIBC; Provisional; Region: PRK11404 420889002574 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 420889002575 active site 420889002576 P-loop; other site 420889002577 phosphorylation site [posttranslational modification] 420889002578 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 420889002579 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 420889002580 active site 420889002581 phosphorylation site [posttranslational modification] 420889002582 alpha-mannosidase; Provisional; Region: PRK09819 420889002583 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 420889002584 active site 420889002585 metal binding site [ion binding]; metal-binding site 420889002586 catalytic site [active] 420889002587 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; cl08536 420889002588 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 420889002589 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 420889002590 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 420889002591 putative active site [active] 420889002592 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 420889002593 beta-galactosidase; Region: BGL; TIGR03356 420889002594 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 420889002595 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 420889002596 nucleotide binding site [chemical binding]; other site 420889002597 Uncharacterized protein conserved in bacteria (DUF2200); Region: DUF2200; cl02047 420889002598 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 420889002599 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 420889002600 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 420889002601 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 420889002602 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 420889002603 motif II; other site 420889002604 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 420889002605 1,4-dihydroxy-2-naphthoate octaprenyltransferase [Coenzyme metabolism]; Region: MenA; COG1575 420889002606 UbiA prenyltransferase family; Region: UbiA; pfam01040 420889002607 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 420889002608 Coenzyme A binding pocket [chemical binding]; other site 420889002609 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 420889002610 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 420889002611 active site 420889002612 metal binding site [ion binding]; metal-binding site 420889002613 DNA binding site [nucleotide binding] 420889002614 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 420889002615 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 420889002616 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 420889002617 Walker A/P-loop; other site 420889002618 ATP binding site [chemical binding]; other site 420889002619 Q-loop/lid; other site 420889002620 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 420889002621 ABC transporter signature motif; other site 420889002622 Walker B; other site 420889002623 D-loop; other site 420889002624 H-loop/switch region; other site 420889002625 GTPase CgtA; Reviewed; Region: obgE; PRK12297 420889002626 GTP1/OBG; Region: GTP1_OBG; pfam01018 420889002627 Obg GTPase; Region: Obg; cd01898 420889002628 G1 box; other site 420889002629 GTP/Mg2+ binding site [chemical binding]; other site 420889002630 Switch I region; other site 420889002631 G2 box; other site 420889002632 G3 box; other site 420889002633 Switch II region; other site 420889002634 G4 box; other site 420889002635 G5 box; other site 420889002636 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 420889002637 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 420889002638 RibD C-terminal domain; Region: RibD_C; cl17279 420889002639 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 420889002640 ribonuclease R; Region: RNase_R; TIGR02063 420889002641 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 420889002642 RNB domain; Region: RNB; pfam00773 420889002643 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 420889002644 RNA binding site [nucleotide binding]; other site 420889002645 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 420889002646 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 420889002647 active site 420889002648 (T/H)XGH motif; other site 420889002649 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 420889002650 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 420889002651 active site 420889002652 putative acetyltransferase YhhY; Provisional; Region: PRK10140 420889002653 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 420889002654 Coenzyme A binding pocket [chemical binding]; other site 420889002655 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 420889002656 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 420889002657 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 420889002658 homodimer interface [polypeptide binding]; other site 420889002659 NAD binding pocket [chemical binding]; other site 420889002660 ATP binding pocket [chemical binding]; other site 420889002661 Mg binding site [ion binding]; other site 420889002662 active-site loop [active] 420889002663 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 420889002664 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 420889002665 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 420889002666 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 420889002667 Walker A/P-loop; other site 420889002668 ATP binding site [chemical binding]; other site 420889002669 Q-loop/lid; other site 420889002670 ABC transporter signature motif; other site 420889002671 Walker B; other site 420889002672 D-loop; other site 420889002673 H-loop/switch region; other site 420889002674 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 420889002675 FtsX-like permease family; Region: FtsX; pfam02687 420889002676 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 420889002677 FtsX-like permease family; Region: FtsX; pfam02687 420889002678 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 420889002679 catalytic triad [active] 420889002680 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 420889002681 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 420889002682 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 420889002683 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 420889002684 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 420889002685 WxL domain surface cell wall-binding; Region: WxL; pfam13731 420889002686 Bacterial protein of unknown function (DUF916); Region: DUF916; pfam06030 420889002687 Protein of unknown function C-terminal (DUF3324); Region: DUF3324; pfam11797 420889002688 Mga helix-turn-helix domain; Region: Mga; pfam05043 420889002689 GTP-binding protein LepA; Provisional; Region: PRK05433 420889002690 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 420889002691 G1 box; other site 420889002692 putative GEF interaction site [polypeptide binding]; other site 420889002693 GTP/Mg2+ binding site [chemical binding]; other site 420889002694 Switch I region; other site 420889002695 G2 box; other site 420889002696 G3 box; other site 420889002697 Switch II region; other site 420889002698 G4 box; other site 420889002699 G5 box; other site 420889002700 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 420889002701 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 420889002702 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 420889002703 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 420889002704 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 420889002705 Walker A/P-loop; other site 420889002706 ATP binding site [chemical binding]; other site 420889002707 Q-loop/lid; other site 420889002708 ABC transporter signature motif; other site 420889002709 Walker B; other site 420889002710 D-loop; other site 420889002711 H-loop/switch region; other site 420889002712 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 420889002713 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 420889002714 FtsX-like permease family; Region: FtsX; pfam02687 420889002715 Uncharacterized conserved protein [Function unknown]; Region: COG1359 420889002716 Predicted membrane protein [Function unknown]; Region: COG3759 420889002717 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 420889002718 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 420889002719 potential catalytic triad [active] 420889002720 conserved cys residue [active] 420889002721 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 420889002722 MarR family; Region: MarR; pfam01047 420889002723 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 420889002724 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 420889002725 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 420889002726 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 420889002727 active site 420889002728 P-loop; other site 420889002729 phosphorylation site [posttranslational modification] 420889002730 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 420889002731 active site 420889002732 P-loop; other site 420889002733 phosphorylation site [posttranslational modification] 420889002734 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 420889002735 PRD domain; Region: PRD; pfam00874 420889002736 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 420889002737 active site 420889002738 P-loop; other site 420889002739 phosphorylation site [posttranslational modification] 420889002740 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 420889002741 active site 420889002742 phosphorylation site [posttranslational modification] 420889002743 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 420889002744 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 420889002745 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 420889002746 Protein of unknown function (DUF3048); Region: DUF3048; pfam11258 420889002747 phosphodiesterase YaeI; Provisional; Region: PRK11340 420889002748 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 420889002749 putative active site [active] 420889002750 putative metal binding site [ion binding]; other site 420889002751 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 420889002752 ArsC family; Region: ArsC; pfam03960 420889002753 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 420889002754 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08588 420889002755 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 420889002756 metal binding site [ion binding]; metal-binding site 420889002757 dimer interface [polypeptide binding]; other site 420889002758 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 420889002759 active site 420889002760 metal binding site [ion binding]; metal-binding site 420889002761 lipoprotein signal peptidase; Provisional; Region: PRK14797 420889002762 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 420889002763 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 420889002764 RNA binding surface [nucleotide binding]; other site 420889002765 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 420889002766 active site 420889002767 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 420889002768 FAD binding domain; Region: FAD_binding_4; pfam01565 420889002769 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 420889002770 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 420889002771 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 420889002772 motif II; other site 420889002773 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 420889002774 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 420889002775 Walker A/P-loop; other site 420889002776 ATP binding site [chemical binding]; other site 420889002777 Q-loop/lid; other site 420889002778 ABC transporter signature motif; other site 420889002779 Walker B; other site 420889002780 D-loop; other site 420889002781 H-loop/switch region; other site 420889002782 TOBE domain; Region: TOBE_2; pfam08402 420889002783 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 420889002784 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 420889002785 dimer interface [polypeptide binding]; other site 420889002786 conserved gate region; other site 420889002787 putative PBP binding loops; other site 420889002788 ABC-ATPase subunit interface; other site 420889002789 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 420889002790 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 420889002791 dimer interface [polypeptide binding]; other site 420889002792 conserved gate region; other site 420889002793 putative PBP binding loops; other site 420889002794 ABC-ATPase subunit interface; other site 420889002795 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 420889002796 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 420889002797 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 420889002798 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 420889002799 Int/Topo IB signature motif; other site 420889002800 putative transposase OrfB; Reviewed; Region: PHA02517 420889002801 HTH-like domain; Region: HTH_21; pfam13276 420889002802 Integrase core domain; Region: rve; pfam00665 420889002803 Integrase core domain; Region: rve_3; pfam13683 420889002804 Transposase; Region: HTH_Tnp_1; pfam01527 420889002805 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 420889002806 CHAP domain; Region: CHAP; cl17642 420889002807 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 420889002808 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 420889002809 non-specific DNA binding site [nucleotide binding]; other site 420889002810 salt bridge; other site 420889002811 sequence-specific DNA binding site [nucleotide binding]; other site 420889002812 Uncharacterized phage-associated protein [Function unknown]; Region: GepA; COG3600 420889002813 Cpl-7 lysozyme C-terminal domain; Region: Cpl-7; pfam08230 420889002814 Transglycosylase-like domain; Region: Transglycosylas; pfam06737 420889002815 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 420889002816 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 420889002817 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 420889002818 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 420889002819 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 420889002820 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 420889002821 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 420889002822 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 420889002823 RNA binding surface [nucleotide binding]; other site 420889002824 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 420889002825 active site 420889002826 uracil binding [chemical binding]; other site 420889002827 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 420889002828 catalytic residues [active] 420889002829 dimer interface [polypeptide binding]; other site 420889002830 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 420889002831 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 420889002832 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 420889002833 putative active site [active] 420889002834 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 420889002835 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 420889002836 Walker A/P-loop; other site 420889002837 ATP binding site [chemical binding]; other site 420889002838 Q-loop/lid; other site 420889002839 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 420889002840 ABC transporter signature motif; other site 420889002841 Walker B; other site 420889002842 D-loop; other site 420889002843 ABC transporter; Region: ABC_tran_2; pfam12848 420889002844 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 420889002845 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 420889002846 active site 420889002847 dihydroorotase; Validated; Region: pyrC; PRK09357 420889002848 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 420889002849 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 420889002850 active site 420889002851 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 420889002852 hydrophobic ligand binding site; other site 420889002853 Predicted acetyltransferase involved in intracellular survival and related acetyltransferases [General function prediction only]; Region: Eis; COG4552 420889002854 Acetyltransferase (GNAT) domain; Region: Acetyltransf_9; pfam13527 420889002855 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 420889002856 active site 420889002857 P-loop; other site 420889002858 phosphorylation site [posttranslational modification] 420889002859 Uncharacterized conserved protein [Function unknown]; Region: COG3589 420889002860 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 420889002861 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 420889002862 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 420889002863 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 420889002864 active site residue [active] 420889002865 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 420889002866 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 420889002867 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 420889002868 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 420889002869 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 420889002870 active site residue [active] 420889002871 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 420889002872 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 420889002873 catalytic motif [active] 420889002874 Zn binding site [ion binding]; other site 420889002875 Acyl-ACP thioesterase [Lipid metabolism]; Region: FatA; COG3884 420889002876 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 420889002877 active site 420889002878 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 420889002879 active site 2 [active] 420889002880 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 420889002881 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 420889002882 active site 420889002883 motif I; other site 420889002884 motif II; other site 420889002885 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 420889002886 Protein of unknown function (DUF1461); Region: DUF1461; pfam07314 420889002887 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 420889002888 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 420889002889 active site 420889002890 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 420889002891 NAD(P) binding site [chemical binding]; other site 420889002892 NADH(P)-binding; Region: NAD_binding_10; pfam13460 420889002893 active site 420889002894 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 420889002895 non-specific DNA binding site [nucleotide binding]; other site 420889002896 salt bridge; other site 420889002897 sequence-specific DNA binding site [nucleotide binding]; other site 420889002898 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 420889002899 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 420889002900 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 420889002901 metal binding site [ion binding]; metal-binding site 420889002902 active site 420889002903 I-site; other site 420889002904 Protein of unknown function (DUF3529); Region: DUF3529; pfam12046 420889002905 N-glycosyltransferase; Provisional; Region: PRK11204 420889002906 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 420889002907 DXD motif; other site 420889002908 EAL domain; Region: EAL; pfam00563 420889002909 potential frameshift: common BLAST hit: gi|116511239|ref|YP_808455.1| Na+/H+ antiporter 420889002910 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 420889002911 Predicted membrane protein [Function unknown]; Region: COG3601 420889002912 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 420889002913 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 420889002914 23S rRNA interface [nucleotide binding]; other site 420889002915 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 420889002916 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 420889002917 core dimer interface [polypeptide binding]; other site 420889002918 peripheral dimer interface [polypeptide binding]; other site 420889002919 L10 interface [polypeptide binding]; other site 420889002920 L11 interface [polypeptide binding]; other site 420889002921 putative EF-Tu interaction site [polypeptide binding]; other site 420889002922 putative EF-G interaction site [polypeptide binding]; other site 420889002923 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 420889002924 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 420889002925 D-loop; other site 420889002926 H-loop/switch region; other site 420889002927 DsrE/DsrF-like family; Region: DrsE; cl00672 420889002928 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 420889002929 active site 420889002930 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 420889002931 Zn binding site [ion binding]; other site 420889002932 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 420889002933 active site 420889002934 Protein of unknown function (DUF1211); Region: DUF1211; cl01421 420889002935 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 420889002936 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 420889002937 Coenzyme A binding pocket [chemical binding]; other site 420889002938 amidase; Provisional; Region: PRK06529 420889002939 Amidase; Region: Amidase; cl11426 420889002940 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 420889002941 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 420889002942 substrate binding pocket [chemical binding]; other site 420889002943 membrane-bound complex binding site; other site 420889002944 hinge residues; other site 420889002945 OsmC-like protein; Region: OsmC; cl00767 420889002946 bifunctional glutamate--cysteine ligase/glutathione synthetase; Provisional; Region: PRK02471 420889002947 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 420889002948 ATP-grasp domain; Region: ATP-grasp_4; cl17255 420889002949 Major Facilitator Superfamily; Region: MFS_1; pfam07690 420889002950 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 420889002951 putative substrate translocation pore; other site 420889002952 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 420889002953 Predicted transcriptional regulator [Transcription]; Region: COG1959 420889002954 Transcriptional regulator; Region: Rrf2; pfam02082 420889002955 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 420889002956 NADH(P)-binding; Region: NAD_binding_10; pfam13460 420889002957 NAD binding site [chemical binding]; other site 420889002958 substrate binding site [chemical binding]; other site 420889002959 putative active site [active] 420889002960 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 420889002961 Clp amino terminal domain; Region: Clp_N; pfam02861 420889002962 Clp amino terminal domain; Region: Clp_N; pfam02861 420889002963 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 420889002964 Walker A motif; other site 420889002965 ATP binding site [chemical binding]; other site 420889002966 Walker B motif; other site 420889002967 arginine finger; other site 420889002968 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 420889002969 Walker A motif; other site 420889002970 ATP binding site [chemical binding]; other site 420889002971 Walker B motif; other site 420889002972 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 420889002973 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 420889002974 active site 420889002975 multimer interface [polypeptide binding]; other site 420889002976 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 420889002977 Major Facilitator Superfamily; Region: MFS_1; pfam07690 420889002978 putative substrate translocation pore; other site 420889002979 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 420889002980 S-adenosylmethionine binding site [chemical binding]; other site 420889002981 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 420889002982 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 420889002983 Uncharacterized conserved protein [Function unknown]; Region: COG2013 420889002984 manganese transport protein MntH; Reviewed; Region: PRK00701 420889002985 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 420889002986 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 420889002987 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 420889002988 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 420889002989 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 420889002990 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 420889002991 DNA-binding site [nucleotide binding]; DNA binding site 420889002992 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 420889002993 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 420889002994 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 420889002995 alpha-mannosidase; Provisional; Region: PRK09819 420889002996 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 420889002997 active site 420889002998 metal binding site [ion binding]; metal-binding site 420889002999 catalytic site [active] 420889003000 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; cl08536 420889003001 Uncharacterized conserved protein [Function unknown]; Region: COG3538 420889003002 Protein of unknown function (DUF1237); Region: DUF1237; pfam06824 420889003003 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 420889003004 active site 420889003005 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 420889003006 beta-galactosidase; Region: BGL; TIGR03356 420889003007 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 420889003008 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 420889003009 nucleotide binding site [chemical binding]; other site 420889003010 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 420889003011 active site residue [active] 420889003012 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 420889003013 active site residue [active] 420889003014 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 420889003015 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 420889003016 putative substrate translocation pore; other site 420889003017 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 420889003018 ArsC family; Region: ArsC; pfam03960 420889003019 putative catalytic residues [active] 420889003020 thiol/disulfide switch; other site 420889003021 L-lactate oxidase; Region: L_lactate_ox; TIGR02708 420889003022 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 420889003023 teramer interface [polypeptide binding]; other site 420889003024 active site 420889003025 FMN binding site [chemical binding]; other site 420889003026 catalytic residues [active] 420889003027 pyruvate oxidase; Region: pyruv_oxi_spxB; TIGR02720 420889003028 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 420889003029 PYR/PP interface [polypeptide binding]; other site 420889003030 dimer interface [polypeptide binding]; other site 420889003031 tetramer interface [polypeptide binding]; other site 420889003032 TPP binding site [chemical binding]; other site 420889003033 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 420889003034 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 420889003035 TPP-binding site [chemical binding]; other site 420889003036 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 420889003037 Predicted acetyltransferase [General function prediction only]; Region: COG2388 420889003038 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 420889003039 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 420889003040 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 420889003041 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 420889003042 Transcriptional regulators [Transcription]; Region: PurR; COG1609 420889003043 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 420889003044 DNA binding site [nucleotide binding] 420889003045 domain linker motif; other site 420889003046 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 420889003047 dimerization interface [polypeptide binding]; other site 420889003048 ligand binding site [chemical binding]; other site 420889003049 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 420889003050 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 420889003051 substrate binding site [chemical binding]; other site 420889003052 dimer interface [polypeptide binding]; other site 420889003053 ATP binding site [chemical binding]; other site 420889003054 D-ribose pyranase; Provisional; Region: PRK11797 420889003055 Sugar transport protein; Region: Sugar_transport; pfam06800 420889003056 GTPase RsgA; Reviewed; Region: PRK01889 420889003057 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 420889003058 RNA binding site [nucleotide binding]; other site 420889003059 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 420889003060 GTPase/Zn-binding domain interface [polypeptide binding]; other site 420889003061 GTP/Mg2+ binding site [chemical binding]; other site 420889003062 G4 box; other site 420889003063 G5 box; other site 420889003064 G1 box; other site 420889003065 Switch I region; other site 420889003066 G2 box; other site 420889003067 G3 box; other site 420889003068 Switch II region; other site 420889003069 putative transposase OrfB; Reviewed; Region: PHA02517 420889003070 HTH-like domain; Region: HTH_21; pfam13276 420889003071 Integrase core domain; Region: rve; pfam00665 420889003072 Integrase core domain; Region: rve_3; pfam13683 420889003073 Transposase; Region: HTH_Tnp_1; pfam01527 420889003074 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 420889003075 Glutamate 5-kinase [Amino acid transport and metabolism]; Region: ProB; COG0263 420889003076 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 420889003077 nucleotide binding site [chemical binding]; other site 420889003078 homotetrameric interface [polypeptide binding]; other site 420889003079 putative phosphate binding site [ion binding]; other site 420889003080 putative allosteric binding site; other site 420889003081 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 420889003082 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 420889003083 putative catalytic cysteine [active] 420889003084 Uncharacterized protein with an alpha/beta hydrolase fold [General function prediction only]; Region: COG4814 420889003085 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 420889003086 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 420889003087 acyl-activating enzyme (AAE) consensus motif; other site 420889003088 AMP binding site [chemical binding]; other site 420889003089 D-alanyl-lipoteichoic acid biosynthesis protein DltB; Region: LTA_dltB; TIGR04091 420889003090 D-alanine--poly(phosphoribitol) ligase subunit 2; Validated; Region: PRK05087 420889003091 Protein involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltD; COG3966 420889003092 DltD N-terminal region; Region: DltD_N; pfam04915 420889003093 DltD central region; Region: DltD_M; pfam04918 420889003094 DltD C-terminal region; Region: DltD_C; pfam04914 420889003095 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 420889003096 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 420889003097 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 420889003098 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 420889003099 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 420889003100 Soluble P-type ATPase [General function prediction only]; Region: COG4087 420889003101 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 420889003102 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 420889003103 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 420889003104 asparagine synthetase AsnA; Provisional; Region: PRK05425 420889003105 motif 1; other site 420889003106 dimer interface [polypeptide binding]; other site 420889003107 active site 420889003108 motif 2; other site 420889003109 motif 3; other site 420889003110 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 420889003111 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 420889003112 DNA binding residues [nucleotide binding] 420889003113 putative dimer interface [polypeptide binding]; other site 420889003114 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 420889003115 potential frameshift: common BLAST hit: gi|339634793|ref|YP_004726434.1| alcohol dehydrogenase 420889003116 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 420889003117 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 420889003118 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 420889003119 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 420889003120 NAD(P) binding site [chemical binding]; other site 420889003121 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 420889003122 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 420889003123 active site 420889003124 DNA binding site [nucleotide binding] 420889003125 Int/Topo IB signature motif; other site 420889003126 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 420889003127 Glucose inhibited division protein A; Region: GIDA; pfam01134 420889003128 DNA topoisomerase I; Validated; Region: PRK05582 420889003129 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 420889003130 active site 420889003131 interdomain interaction site; other site 420889003132 putative metal-binding site [ion binding]; other site 420889003133 nucleotide binding site [chemical binding]; other site 420889003134 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 420889003135 domain I; other site 420889003136 DNA binding groove [nucleotide binding] 420889003137 phosphate binding site [ion binding]; other site 420889003138 domain II; other site 420889003139 domain III; other site 420889003140 nucleotide binding site [chemical binding]; other site 420889003141 catalytic site [active] 420889003142 domain IV; other site 420889003143 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 420889003144 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 420889003145 DNA protecting protein DprA; Region: dprA; TIGR00732 420889003146 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 420889003147 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 420889003148 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 420889003149 dimer interface [polypeptide binding]; other site 420889003150 conserved gate region; other site 420889003151 putative PBP binding loops; other site 420889003152 ABC-ATPase subunit interface; other site 420889003153 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 420889003154 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 420889003155 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 420889003156 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 420889003157 Walker A/P-loop; other site 420889003158 ATP binding site [chemical binding]; other site 420889003159 Q-loop/lid; other site 420889003160 ABC transporter signature motif; other site 420889003161 Walker B; other site 420889003162 D-loop; other site 420889003163 H-loop/switch region; other site 420889003164 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 420889003165 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 420889003166 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 420889003167 DNA-binding site [nucleotide binding]; DNA binding site 420889003168 Putative regulatory, ligand-binding protein related to C-terminal domains of K+ channels [Inorganic ion transport and metabolism]; Region: COG0490 420889003169 TrkA-C domain; Region: TrkA_C; pfam02080 420889003170 Domain of unknown function (DUF368); Region: DUF368; cl00893 420889003171 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 420889003172 30S subunit binding site; other site 420889003173 Acyl carrier protein phosphodiesterase [Lipid metabolism]; Region: AcpD; COG1182 420889003174 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 420889003175 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 420889003176 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 420889003177 catalytic residue [active] 420889003178 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 420889003179 catalytic residues [active] 420889003180 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 420889003181 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 420889003182 peroxiredoxin; Region: AhpC; TIGR03137 420889003183 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 420889003184 dimer interface [polypeptide binding]; other site 420889003185 decamer (pentamer of dimers) interface [polypeptide binding]; other site 420889003186 catalytic triad [active] 420889003187 peroxidatic and resolving cysteines [active] 420889003188 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 420889003189 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 420889003190 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 420889003191 active site 420889003192 cystathionine gamma-synthase/cystathionine beta-lyase; Validated; Region: PRK06176 420889003193 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 420889003194 homodimer interface [polypeptide binding]; other site 420889003195 substrate-cofactor binding pocket; other site 420889003196 pyridoxal 5'-phosphate binding site [chemical binding]; other site 420889003197 catalytic residue [active] 420889003198 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK07251 420889003199 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 420889003200 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 420889003201 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4918 420889003202 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 420889003203 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 420889003204 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 420889003205 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 420889003206 Protein of unknown function (DUF1700); Region: DUF1700; pfam08006 420889003207 Predicted transcriptional regulators [Transcription]; Region: COG1695 420889003208 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 420889003209 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 420889003210 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 420889003211 Soluble P-type ATPase [General function prediction only]; Region: COG4087 420889003212 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 420889003213 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 420889003214 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 420889003215 active site turn [active] 420889003216 phosphorylation site [posttranslational modification] 420889003217 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 420889003218 HPr interaction site; other site 420889003219 glycerol kinase (GK) interaction site [polypeptide binding]; other site 420889003220 active site 420889003221 phosphorylation site [posttranslational modification] 420889003222 TspO/MBR family; Region: TspO_MBR; pfam03073 420889003223 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 420889003224 Glycosyl hydrolases family 18; Region: Glyco_hydro_18; pfam00704 420889003225 putative active site [active] 420889003226 Uncharacterized protein contain chitin-binding domain type 3 [General function prediction only]; Region: COG3979 420889003227 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 420889003228 Interdomain contacts; other site 420889003229 Cytokine receptor motif; other site 420889003230 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 420889003231 aromatic chitin/cellulose binding site residues [chemical binding]; other site 420889003232 Chitin binding domain; Region: Chitin_bind_3; pfam03067 420889003233 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 420889003234 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 420889003235 putative active site [active] 420889003236 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 420889003237 potential frameshift: common BLAST hit: gi|331265789|ref|YP_004325419.1| superfamily I DNA and RNA helicases and helicase subunits 420889003238 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 420889003239 AAA domain; Region: AAA_12; pfam13087 420889003240 Part of AAA domain; Region: AAA_19; pfam13245 420889003241 acetolactate synthase; Reviewed; Region: PRK08617 420889003242 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 420889003243 PYR/PP interface [polypeptide binding]; other site 420889003244 dimer interface [polypeptide binding]; other site 420889003245 TPP binding site [chemical binding]; other site 420889003246 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 420889003247 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 420889003248 TPP-binding site [chemical binding]; other site 420889003249 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 420889003250 binding surface 420889003251 TPR motif; other site 420889003252 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 420889003253 binding surface 420889003254 TPR motif; other site 420889003255 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 420889003256 binding surface 420889003257 TPR motif; other site 420889003258 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 420889003259 Domain of unknown function DUF20; Region: UPF0118; pfam01594 420889003260 Methyltransferase domain; Region: Methyltransf_31; pfam13847 420889003261 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 420889003262 S-adenosylmethionine binding site [chemical binding]; other site 420889003263 TRAM domain; Region: TRAM; pfam01938 420889003264 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 420889003265 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 420889003266 S-adenosylmethionine binding site [chemical binding]; other site 420889003267 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 420889003268 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 420889003269 active site 420889003270 motif I; other site 420889003271 motif II; other site 420889003272 Uncharacterized conserved protein [Function unknown]; Region: COG0327 420889003273 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 420889003274 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 420889003275 Family of unknown function (DUF633); Region: DUF633; pfam04816 420889003276 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 420889003277 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 420889003278 minor groove reading motif; other site 420889003279 helix-hairpin-helix signature motif; other site 420889003280 substrate binding pocket [chemical binding]; other site 420889003281 active site 420889003282 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 420889003283 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 420889003284 DnaD and phage-associated domain; Region: DnaD_dom; TIGR01446 420889003285 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 420889003286 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 420889003287 active site 420889003288 catalytic tetrad [active] 420889003289 methionine sulfoxide reductase B; Provisional; Region: PRK00222 420889003290 SelR domain; Region: SelR; pfam01641 420889003291 2-hydroxycarboxylate transporter family; Region: 2HCT; cl01386 420889003292 malate dehydrogenase; Provisional; Region: PRK13529 420889003293 Malic enzyme, N-terminal domain; Region: malic; pfam00390 420889003294 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 420889003295 NAD(P) binding site [chemical binding]; other site 420889003296 Transcriptional regulator [Transcription]; Region: LysR; COG0583 420889003297 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 420889003298 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 420889003299 dimerization interface [polypeptide binding]; other site 420889003300 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 420889003301 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 420889003302 CoA binding domain; Region: CoA_binding; pfam02629 420889003303 hypothetical protein; Reviewed; Region: PRK00024 420889003304 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 420889003305 helix-hairpin-helix signature motif; other site 420889003306 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 420889003307 MPN+ (JAMM) motif; other site 420889003308 Zinc-binding site [ion binding]; other site 420889003309 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 420889003310 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 420889003311 glutaminase active site [active] 420889003312 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 420889003313 dimer interface [polypeptide binding]; other site 420889003314 active site 420889003315 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 420889003316 dimer interface [polypeptide binding]; other site 420889003317 active site 420889003318 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 420889003319 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 420889003320 Substrate-binding site [chemical binding]; other site 420889003321 Substrate specificity [chemical binding]; other site 420889003322 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 420889003323 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 420889003324 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 420889003325 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 420889003326 nudix motif; other site 420889003327 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 420889003328 dihydropteroate synthase; Region: DHPS; TIGR01496 420889003329 substrate binding pocket [chemical binding]; other site 420889003330 dimer interface [polypeptide binding]; other site 420889003331 inhibitor binding site; inhibition site 420889003332 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 420889003333 catalytic center binding site [active] 420889003334 ATP binding site [chemical binding]; other site 420889003335 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 420889003336 GTP cyclohydrolase I; Provisional; Region: PLN03044 420889003337 active site 420889003338 Dihydroneopterin aldolase [Coenzyme metabolism]; Region: FolB; COG1539 420889003339 active site 420889003340 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 420889003341 G1 box; other site 420889003342 GTP/Mg2+ binding site [chemical binding]; other site 420889003343 Switch I region; other site 420889003344 G2 box; other site 420889003345 G3 box; other site 420889003346 Switch II region; other site 420889003347 G4 box; other site 420889003348 G5 box; other site 420889003349 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 420889003350 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 420889003351 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 420889003352 Walker A motif; other site 420889003353 ATP binding site [chemical binding]; other site 420889003354 Walker B motif; other site 420889003355 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 420889003356 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 420889003357 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 420889003358 folate binding site [chemical binding]; other site 420889003359 NADP+ binding site [chemical binding]; other site 420889003360 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 420889003361 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 420889003362 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 420889003363 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 420889003364 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 420889003365 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 420889003366 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 420889003367 xanthine permease; Region: pbuX; TIGR03173 420889003368 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 420889003369 active site 420889003370 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 420889003371 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 420889003372 RNA binding surface [nucleotide binding]; other site 420889003373 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 420889003374 active site 420889003375 segregation and condensation protein B; Reviewed; Region: scpB; PRK00135 420889003376 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 420889003377 site-specific tyrosine recombinase XerD-like protein; Reviewed; Region: xerD; PRK02436 420889003378 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 420889003379 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 420889003380 active site 420889003381 catalytic residues [active] 420889003382 DNA binding site [nucleotide binding] 420889003383 Int/Topo IB signature motif; other site 420889003384 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 420889003385 FOG: CBS domain [General function prediction only]; Region: COG0517 420889003386 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 420889003387 active site 420889003388 metal binding site [ion binding]; metal-binding site 420889003389 homotetramer interface [polypeptide binding]; other site 420889003390 glutamate racemase; Provisional; Region: PRK00865 420889003391 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 420889003392 active site 420889003393 dimerization interface [polypeptide binding]; other site 420889003394 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3763 420889003395 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 420889003396 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 420889003397 homodimer interface [polypeptide binding]; other site 420889003398 substrate-cofactor binding pocket; other site 420889003399 catalytic residue [active] 420889003400 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 420889003401 Mechanosensitive ion channel; Region: MS_channel; pfam00924 420889003402 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 420889003403 RNA/DNA hybrid binding site [nucleotide binding]; other site 420889003404 active site 420889003405 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 420889003406 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 420889003407 GTP/Mg2+ binding site [chemical binding]; other site 420889003408 G4 box; other site 420889003409 G5 box; other site 420889003410 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 420889003411 G1 box; other site 420889003412 Switch I region; other site 420889003413 G2 box; other site 420889003414 G3 box; other site 420889003415 Switch II region; other site 420889003416 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 420889003417 active site 420889003418 DNA binding site [nucleotide binding] 420889003419 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 420889003420 DNA polymerase IV; Reviewed; Region: PRK03103 420889003421 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 420889003422 active site 420889003423 DNA binding site [nucleotide binding] 420889003424 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 420889003425 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 420889003426 active site 420889003427 phosphate-starvation-inducible protein PsiE; Provisional; Region: PRK02833 420889003428 pyruvate phosphate dikinase; Provisional; Region: PRK09279 420889003429 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 420889003430 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 420889003431 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 420889003432 HTH domain; Region: HTH_11; pfam08279 420889003433 FOG: CBS domain [General function prediction only]; Region: COG0517 420889003434 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 420889003435 Kinase/pyrophosphorylase; Region: Kinase-PPPase; pfam03618 420889003436 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 420889003437 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 420889003438 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 420889003439 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 420889003440 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 420889003441 metal binding site [ion binding]; metal-binding site 420889003442 active site 420889003443 I-site; other site 420889003444 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 420889003445 Transposase; Region: HTH_Tnp_1; pfam01527 420889003446 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 420889003447 putative transposase OrfB; Reviewed; Region: PHA02517 420889003448 HTH-like domain; Region: HTH_21; pfam13276 420889003449 Integrase core domain; Region: rve; pfam00665 420889003450 Integrase core domain; Region: rve_3; pfam13683 420889003451 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 420889003452 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12898 420889003453 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 420889003454 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 420889003455 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 420889003456 nucleotide binding region [chemical binding]; other site 420889003457 ATP-binding site [chemical binding]; other site 420889003458 SecA Wing and Scaffold domain; Region: SecA_SW; pfam07516 420889003459 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 420889003460 Ligand Binding Site [chemical binding]; other site 420889003461 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 420889003462 Ligand Binding Site [chemical binding]; other site 420889003463 Protein of unknown function (DUF1398); Region: DUF1398; cl11576 420889003464 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 420889003465 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 420889003466 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5294 420889003467 Protein of unknown function (DUF1093); Region: DUF1093; cl02185 420889003468 Protein of unknown function (DUF1440); Region: DUF1440; pfam07274 420889003469 CHAP domain; Region: CHAP; cl17642 420889003470 potential frameshift: common BLAST hit: gi|15673415|ref|NP_267589.1| integrase 420889003471 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 420889003472 Int/Topo IB signature motif; other site 420889003473 CHAP domain; Region: CHAP; cl17642 420889003474 Haemolysin XhlA; Region: XhlA; pfam10779 420889003475 gp58-like protein; Region: Gp58; pfam07902 420889003476 Phage-related protein [Function unknown]; Region: COG5412 420889003477 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 420889003478 N-acetyl-D-glucosamine binding site [chemical binding]; other site 420889003479 catalytic residue [active] 420889003480 Phage tail protein; Region: Phage_tail_3; pfam08813 420889003481 Head-Tail Connector Protein gp15 of Bacteriophage SPP1 and similar proteins; Region: gp15; cd08055 420889003482 Phage capsid family; Region: Phage_capsid; pfam05065 420889003483 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 420889003484 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 420889003485 Domain of unknown function (DUF4355); Region: DUF4355; pfam14265 420889003486 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 420889003487 hypothetical protein; Provisional; Region: PRK14553 420889003488 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 420889003489 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 420889003490 Phage terminase large subunit; Region: Terminase_3; cl12054 420889003491 Terminase small subunit; Region: Terminase_2; pfam03592 420889003492 Protein of unknown function (DUF722); Region: DUF722; pfam05263 420889003493 Prophage protein (DUF1660); Region: DUF1660; pfam07874 420889003494 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 420889003495 non-specific DNA binding site [nucleotide binding]; other site 420889003496 salt bridge; other site 420889003497 sequence-specific DNA binding site [nucleotide binding]; other site 420889003498 Protein of unknown function (DUF1642); Region: DUF1642; pfam07852 420889003499 Endodeoxyribonuclease RusA; Region: RusA; cl01885 420889003500 Helix-turn-helix domain; Region: HTH_36; pfam13730 420889003501 HNH endonuclease; Region: HNH_3; pfam13392 420889003502 phage nucleotide-binding protein; Region: phage_P_loop; TIGR01618 420889003503 AAA domain; Region: AAA_24; pfam13479 420889003504 Siphovirus Gp157; Region: Sipho_Gp157; pfam05565 420889003505 Phage anti-repressor protein [Transcription]; Region: COG3561 420889003506 ORF6C domain; Region: ORF6C; pfam10552 420889003507 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 420889003508 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 420889003509 non-specific DNA binding site [nucleotide binding]; other site 420889003510 salt bridge; other site 420889003511 sequence-specific DNA binding site [nucleotide binding]; other site 420889003512 Lactococcus bacteriophage repressor; Region: Lac_bphage_repr; pfam06543 420889003513 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 420889003514 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 420889003515 Int/Topo IB signature motif; other site 420889003516 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 420889003517 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 420889003518 Walker A/P-loop; other site 420889003519 ATP binding site [chemical binding]; other site 420889003520 Q-loop/lid; other site 420889003521 ABC transporter signature motif; other site 420889003522 Walker B; other site 420889003523 D-loop; other site 420889003524 H-loop/switch region; other site 420889003525 putative DNA-binding protein; Validated; Region: PRK00118 420889003526 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 420889003527 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 420889003528 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 420889003529 active site 420889003530 phosphorylation site [posttranslational modification] 420889003531 intermolecular recognition site; other site 420889003532 dimerization interface [polypeptide binding]; other site 420889003533 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 420889003534 DNA binding site [nucleotide binding] 420889003535 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 420889003536 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 420889003537 dimer interface [polypeptide binding]; other site 420889003538 phosphorylation site [posttranslational modification] 420889003539 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 420889003540 ATP binding site [chemical binding]; other site 420889003541 Mg2+ binding site [ion binding]; other site 420889003542 G-X-G motif; other site 420889003543 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 420889003544 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 420889003545 DNA-binding site [nucleotide binding]; DNA binding site 420889003546 UTRA domain; Region: UTRA; pfam07702 420889003547 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 420889003548 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 420889003549 ligand binding site [chemical binding]; other site 420889003550 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 420889003551 active site 420889003552 catalytic motif [active] 420889003553 Zn binding site [ion binding]; other site 420889003554 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 420889003555 intersubunit interface [polypeptide binding]; other site 420889003556 active site 420889003557 catalytic residue [active] 420889003558 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 420889003559 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 420889003560 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 420889003561 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 420889003562 Methyltransferase domain; Region: Methyltransf_31; pfam13847 420889003563 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 420889003564 S-adenosylmethionine binding site [chemical binding]; other site 420889003565 pantothenate kinase; Provisional; Region: PRK05439 420889003566 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 420889003567 ATP-binding site [chemical binding]; other site 420889003568 CoA-binding site [chemical binding]; other site 420889003569 Mg2+-binding site [ion binding]; other site 420889003570 GMP synthase; Reviewed; Region: guaA; PRK00074 420889003571 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 420889003572 AMP/PPi binding site [chemical binding]; other site 420889003573 candidate oxyanion hole; other site 420889003574 catalytic triad [active] 420889003575 potential glutamine specificity residues [chemical binding]; other site 420889003576 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 420889003577 ATP Binding subdomain [chemical binding]; other site 420889003578 Dimerization subdomain; other site 420889003579 Protein of unknown function (DUF1093); Region: DUF1093; cl02185 420889003580 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 420889003581 Ligand Binding Site [chemical binding]; other site 420889003582 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 420889003583 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 420889003584 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 420889003585 Zn binding site [ion binding]; other site 420889003586 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 420889003587 Zn binding site [ion binding]; other site 420889003588 Protein of unknown function (DUF1237); Region: DUF1237; pfam06824 420889003589 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 420889003590 ATP-grasp domain; Region: ATP-grasp; pfam02222 420889003591 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 420889003592 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 420889003593 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 420889003594 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 420889003595 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 420889003596 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 420889003597 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 420889003598 motif II; other site 420889003599 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 420889003600 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 420889003601 Ca binding site [ion binding]; other site 420889003602 active site 420889003603 catalytic site [active] 420889003604 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 420889003605 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 420889003606 active site turn [active] 420889003607 phosphorylation site [posttranslational modification] 420889003608 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 420889003609 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 420889003610 HPr interaction site; other site 420889003611 glycerol kinase (GK) interaction site [polypeptide binding]; other site 420889003612 active site 420889003613 phosphorylation site [posttranslational modification] 420889003614 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 420889003615 DNA-binding site [nucleotide binding]; DNA binding site 420889003616 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 420889003617 UTRA domain; Region: UTRA; pfam07702 420889003618 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 420889003619 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 420889003620 purine monophosphate binding site [chemical binding]; other site 420889003621 dimer interface [polypeptide binding]; other site 420889003622 putative catalytic residues [active] 420889003623 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 420889003624 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 420889003625 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 420889003626 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 420889003627 active site 420889003628 substrate binding site [chemical binding]; other site 420889003629 cosubstrate binding site; other site 420889003630 catalytic site [active] 420889003631 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 420889003632 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 420889003633 dimerization interface [polypeptide binding]; other site 420889003634 putative ATP binding site [chemical binding]; other site 420889003635 amidophosphoribosyltransferase; Provisional; Region: PRK07272 420889003636 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 420889003637 active site 420889003638 tetramer interface [polypeptide binding]; other site 420889003639 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 420889003640 active site 420889003641 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 420889003642 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 420889003643 dimerization interface [polypeptide binding]; other site 420889003644 ATP binding site [chemical binding]; other site 420889003645 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 420889003646 dimerization interface [polypeptide binding]; other site 420889003647 ATP binding site [chemical binding]; other site 420889003648 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 420889003649 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 420889003650 putative active site [active] 420889003651 catalytic triad [active] 420889003652 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 420889003653 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 420889003654 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 420889003655 ATP binding site [chemical binding]; other site 420889003656 active site 420889003657 substrate binding site [chemical binding]; other site 420889003658 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 420889003659 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 420889003660 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 420889003661 Coenzyme A binding pocket [chemical binding]; other site 420889003662 thymidylate synthase; Reviewed; Region: thyA; PRK01827 420889003663 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 420889003664 dimerization interface [polypeptide binding]; other site 420889003665 active site 420889003666 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 420889003667 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 420889003668 ABC transporter; Region: ABC_tran_2; pfam12848 420889003669 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 420889003670 Membrane domain of glycerophosphoryl diester phosphodiesterase; Region: GPDPase_memb; pfam10110 420889003671 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 420889003672 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 420889003673 putative active site [active] 420889003674 catalytic site [active] 420889003675 putative metal binding site [ion binding]; other site 420889003676 Peptidase family C69; Region: Peptidase_C69; pfam03577 420889003677 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 420889003678 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 420889003679 active site 420889003680 NTP binding site [chemical binding]; other site 420889003681 metal binding triad [ion binding]; metal-binding site 420889003682 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 420889003683 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 420889003684 hypothetical protein; Provisional; Region: PRK07205 420889003685 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 420889003686 active site 420889003687 metal binding site [ion binding]; metal-binding site 420889003688 Predicted membrane protein [Function unknown]; Region: COG1288 420889003689 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 420889003690 EDD domain protein, DegV family; Region: DegV; TIGR00762 420889003691 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 420889003692 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4835 420889003693 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 420889003694 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 420889003695 motif II; other site 420889003696 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 420889003697 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 420889003698 RimM N-terminal domain; Region: RimM; pfam01782 420889003699 PRC-barrel domain; Region: PRC; pfam05239 420889003700 amino acid transporter; Region: 2A0306; TIGR00909 420889003701 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 420889003702 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 420889003703 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 420889003704 Protein of unknown function (DUF3290); Region: DUF3290; pfam11694 420889003705 Predicted membrane protein [Function unknown]; Region: COG2323 420889003706 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 420889003707 S-adenosylmethionine binding site [chemical binding]; other site 420889003708 Predicted membrane protein [Function unknown]; Region: COG2261 420889003709 N(5)-(carboxyethyl)ornithine synthase; Region: ceo_syn; cd12181 420889003710 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 420889003711 putative active site [active] 420889003712 putative ligand binding site [chemical binding]; other site 420889003713 putative NAD(P) binding site [chemical binding]; other site 420889003714 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 420889003715 Small integral membrane protein (DUF2273); Region: DUF2273; cl11575 420889003716 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 420889003717 potential frameshift: common BLAST hit: gi|281490773|ref|YP_003352753.1| CorA family Mg2+/Co2+ transporter 420889003718 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 420889003719 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 420889003720 oligomer interface [polypeptide binding]; other site 420889003721 fumarate reductase flavoprotein subunit; Validated; Region: PRK06481 420889003722 L-aspartate oxidase; Provisional; Region: PRK06175 420889003723 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 420889003724 Domain of unknown function DUF21; Region: DUF21; pfam01595 420889003725 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 420889003726 Transporter associated domain; Region: CorC_HlyC; pfam03471 420889003727 Predicted transcriptional regulators [Transcription]; Region: COG1695 420889003728 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 420889003729 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 420889003730 Phenolic acid decarboxylase (PAD); Region: PA_decarbox; cl01382 420889003731 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 420889003732 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 420889003733 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 420889003734 ArsC family; Region: ArsC; pfam03960 420889003735 putative catalytic residues [active] 420889003736 thiol/disulfide switch; other site 420889003737 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 420889003738 KH domain; Region: KH_4; pfam13083 420889003739 Ribosomal protein S16 [Translation, ribosomal structure and biogenesis]; Region: RpsP; COG0228 420889003740 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 420889003741 homodimer interface [polypeptide binding]; other site 420889003742 catalytic residues [active] 420889003743 NAD binding site [chemical binding]; other site 420889003744 substrate binding pocket [chemical binding]; other site 420889003745 flexible flap; other site 420889003746 putative acyltransferase; Provisional; Region: PRK05790 420889003747 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 420889003748 dimer interface [polypeptide binding]; other site 420889003749 active site 420889003750 "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 420889003751 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 420889003752 dimer interface [polypeptide binding]; other site 420889003753 active site 420889003754 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 420889003755 classical (c) SDRs; Region: SDR_c; cd05233 420889003756 NAD(P) binding site [chemical binding]; other site 420889003757 active site 420889003758 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 420889003759 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 420889003760 DNA-binding site [nucleotide binding]; DNA binding site 420889003761 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 420889003762 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 420889003763 putative oxidoreductase; Provisional; Region: PRK10206 420889003764 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 420889003765 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 420889003766 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 420889003767 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 420889003768 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 420889003769 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 420889003770 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 420889003771 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 420889003772 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 420889003773 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 420889003774 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 420889003775 glycerol kinase; Provisional; Region: glpK; PRK00047 420889003776 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 420889003777 N- and C-terminal domain interface [polypeptide binding]; other site 420889003778 active site 420889003779 MgATP binding site [chemical binding]; other site 420889003780 catalytic site [active] 420889003781 metal binding site [ion binding]; metal-binding site 420889003782 glycerol binding site [chemical binding]; other site 420889003783 homotetramer interface [polypeptide binding]; other site 420889003784 homodimer interface [polypeptide binding]; other site 420889003785 FBP binding site [chemical binding]; other site 420889003786 protein IIAGlc interface [polypeptide binding]; other site 420889003787 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 420889003788 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 420889003789 active site 420889003790 trimer interface [polypeptide binding]; other site 420889003791 allosteric site; other site 420889003792 active site lid [active] 420889003793 Transcriptional regulator [Transcription]; Region: LytR; COG1316 420889003794 Exopolysaccharide biosynthesis protein related to N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: EpsL; COG4632 420889003795 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 420889003796 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 420889003797 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 420889003798 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 420889003799 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 420889003800 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 420889003801 active site 420889003802 nucleotide binding site [chemical binding]; other site 420889003803 HIGH motif; other site 420889003804 KMSKS motif; other site 420889003805 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 420889003806 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 420889003807 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 420889003808 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 420889003809 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 420889003810 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 420889003811 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 420889003812 Walker A/P-loop; other site 420889003813 ATP binding site [chemical binding]; other site 420889003814 Q-loop/lid; other site 420889003815 ABC transporter signature motif; other site 420889003816 Walker B; other site 420889003817 D-loop; other site 420889003818 H-loop/switch region; other site 420889003819 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 420889003820 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 420889003821 non-specific DNA binding site [nucleotide binding]; other site 420889003822 salt bridge; other site 420889003823 sequence-specific DNA binding site [nucleotide binding]; other site 420889003824 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 420889003825 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 420889003826 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 420889003827 ArsC family; Region: ArsC; pfam03960 420889003828 BioY family; Region: BioY; pfam02632 420889003829 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 420889003830 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 420889003831 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 420889003832 catalytic site [active] 420889003833 subunit interface [polypeptide binding]; other site 420889003834 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 420889003835 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 420889003836 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 420889003837 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 420889003838 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 420889003839 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 420889003840 active site 420889003841 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 420889003842 GntP family permease; Region: GntP_permease; pfam02447 420889003843 fructuronate transporter; Provisional; Region: PRK10034; cl15264 420889003844 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 420889003845 Gluconate kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 420889003846 N- and C-terminal domain interface [polypeptide binding]; other site 420889003847 active site 420889003848 catalytic site [active] 420889003849 metal binding site [ion binding]; metal-binding site 420889003850 carbohydrate binding site [chemical binding]; other site 420889003851 ATP binding site [chemical binding]; other site 420889003852 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 420889003853 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 420889003854 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 420889003855 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 420889003856 Ca binding site [ion binding]; other site 420889003857 active site 420889003858 catalytic site [active] 420889003859 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 420889003860 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 420889003861 RNA binding site [nucleotide binding]; other site 420889003862 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 420889003863 RNA binding site [nucleotide binding]; other site 420889003864 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 420889003865 RNA binding site [nucleotide binding]; other site 420889003866 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 420889003867 RNA binding site [nucleotide binding]; other site 420889003868 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 420889003869 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 420889003870 Galactose-1-phosphate uridylyltransferase [Energy production and conversion]; Region: GalT; COG1085 420889003871 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 420889003872 nucleotide binding site/active site [active] 420889003873 HIT family signature motif; other site 420889003874 catalytic residue [active] 420889003875 Predicted membrane protein [Function unknown]; Region: COG4485 420889003876 Transposase; Region: HTH_Tnp_1; pfam01527 420889003877 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 420889003878 putative transposase OrfB; Reviewed; Region: PHA02517 420889003879 HTH-like domain; Region: HTH_21; pfam13276 420889003880 Integrase core domain; Region: rve; pfam00665 420889003881 Integrase core domain; Region: rve_3; pfam13683 420889003882 Protein of unknown function (DUF1093); Region: DUF1093; cl02185 420889003883 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5294 420889003884 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 420889003885 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 420889003886 Mg2+ binding site [ion binding]; other site 420889003887 G-X-G motif; other site 420889003888 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 420889003889 anchoring element; other site 420889003890 dimer interface [polypeptide binding]; other site 420889003891 ATP binding site [chemical binding]; other site 420889003892 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 420889003893 active site 420889003894 putative metal-binding site [ion binding]; other site 420889003895 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 420889003896 Integral membrane protein (intg_mem_TP0381); Region: Intg_mem_TP0381; pfam09529 420889003897 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 420889003898 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 420889003899 motif II; other site 420889003900 Amidinotransferase; Region: Amidinotransf; cl12043 420889003901 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 420889003902 Uncharacterized conserved protein [Function unknown]; Region: COG1284 420889003903 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 420889003904 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; cl17626 420889003905 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 420889003906 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 420889003907 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 420889003908 active site 420889003909 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 420889003910 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 420889003911 FeS/SAM binding site; other site 420889003912 HemN C-terminal domain; Region: HemN_C; pfam06969 420889003913 aspartate 4-decarboxylase; Region: asp_4_decarbox; TIGR03801 420889003914 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 420889003915 pyridoxal 5'-phosphate binding site [chemical binding]; other site 420889003916 homodimer interface [polypeptide binding]; other site 420889003917 catalytic residue [active] 420889003918 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 420889003919 triosephosphate isomerase; Provisional; Region: PRK14565 420889003920 substrate binding site [chemical binding]; other site 420889003921 dimer interface [polypeptide binding]; other site 420889003922 catalytic triad [active] 420889003923 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 420889003924 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 420889003925 active site 420889003926 Riboflavin kinase; Region: Flavokinase; smart00904 420889003927 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK02484 420889003928 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 420889003929 RNA binding site [nucleotide binding]; other site 420889003930 active site 420889003931 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 420889003932 dimer interface [polypeptide binding]; other site 420889003933 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 420889003934 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 420889003935 H+ Antiporter protein; Region: 2A0121; TIGR00900 420889003936 putative substrate translocation pore; other site 420889003937 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 420889003938 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 420889003939 Part of AAA domain; Region: AAA_19; pfam13245 420889003940 Family description; Region: UvrD_C_2; pfam13538 420889003941 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 420889003942 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 420889003943 Walker A/P-loop; other site 420889003944 ATP binding site [chemical binding]; other site 420889003945 Q-loop/lid; other site 420889003946 ABC transporter signature motif; other site 420889003947 Walker B; other site 420889003948 D-loop; other site 420889003949 H-loop/switch region; other site 420889003950 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 420889003951 active site 420889003952 catalytic site [active] 420889003953 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 420889003954 ApbE family; Region: ApbE; pfam02424 420889003955 DNA gyrase subunit A; Validated; Region: PRK05560 420889003956 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 420889003957 CAP-like domain; other site 420889003958 active site 420889003959 primary dimer interface [polypeptide binding]; other site 420889003960 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 420889003961 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 420889003962 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 420889003963 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 420889003964 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 420889003965 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 420889003966 DNA topoisomerase IV, A subunit, Gram-positive; Region: parC_Gpos; TIGR01061 420889003967 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 420889003968 CAP-like domain; other site 420889003969 active site 420889003970 primary dimer interface [polypeptide binding]; other site 420889003971 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 420889003972 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 420889003973 Coenzyme A binding pocket [chemical binding]; other site 420889003974 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 420889003975 active site 420889003976 catalytic site [active] 420889003977 substrate binding site [chemical binding]; other site 420889003978 DNA topoisomerase IV, B subunit, Gram-positive; Region: parE_Gpos; TIGR01058 420889003979 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 420889003980 Mg2+ binding site [ion binding]; other site 420889003981 G-X-G motif; other site 420889003982 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 420889003983 anchoring element; other site 420889003984 dimer interface [polypeptide binding]; other site 420889003985 ATP binding site [chemical binding]; other site 420889003986 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 420889003987 active site 420889003988 putative metal-binding site [ion binding]; other site 420889003989 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 420889003990 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 420889003991 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 420889003992 catalytic residues [active] 420889003993 NrdI Flavodoxin like; Region: Flavodoxin_NdrI; cl17293 420889003994 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07306 420889003995 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 420889003996 Class I ribonucleotide reductase; Region: RNR_I; cd01679 420889003997 active site 420889003998 dimer interface [polypeptide binding]; other site 420889003999 catalytic residues [active] 420889004000 effector binding site; other site 420889004001 R2 peptide binding site; other site 420889004002 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 420889004003 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 420889004004 dimer interface [polypeptide binding]; other site 420889004005 putative radical transfer pathway; other site 420889004006 diiron center [ion binding]; other site 420889004007 tyrosyl radical; other site 420889004008 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 420889004009 HD domain; Region: HD_3; cl17350 420889004010 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 420889004011 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 420889004012 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 420889004013 Walker A/P-loop; other site 420889004014 ATP binding site [chemical binding]; other site 420889004015 Q-loop/lid; other site 420889004016 ABC transporter signature motif; other site 420889004017 Walker B; other site 420889004018 D-loop; other site 420889004019 H-loop/switch region; other site 420889004020 peptide chain release factor 2; Validated; Region: prfB; PRK00578 420889004021 This domain is found in peptide chain release factors; Region: PCRF; smart00937 420889004022 RF-1 domain; Region: RF-1; pfam00472 420889004023 epoxyqueuosine reductase; Region: TIGR00276 420889004024 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 420889004025 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 420889004026 Domain of unknown function (DUF814); Region: DUF814; pfam05670 420889004027 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 420889004028 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 420889004029 Walker A/P-loop; other site 420889004030 ATP binding site [chemical binding]; other site 420889004031 Q-loop/lid; other site 420889004032 ABC transporter signature motif; other site 420889004033 Walker B; other site 420889004034 D-loop; other site 420889004035 H-loop/switch region; other site 420889004036 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 420889004037 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 420889004038 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 420889004039 TM-ABC transporter signature motif; other site 420889004040 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 420889004041 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 420889004042 TM-ABC transporter signature motif; other site 420889004043 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 420889004044 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 420889004045 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 420889004046 tetramer (dimer of dimers) interface [polypeptide binding]; other site 420889004047 NAD binding site [chemical binding]; other site 420889004048 dimer interface [polypeptide binding]; other site 420889004049 substrate binding site [chemical binding]; other site 420889004050 pyruvate kinase; Provisional; Region: PRK05826 420889004051 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 420889004052 domain interfaces; other site 420889004053 active site 420889004054 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 420889004055 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 420889004056 active site 420889004057 ADP/pyrophosphate binding site [chemical binding]; other site 420889004058 dimerization interface [polypeptide binding]; other site 420889004059 allosteric effector site; other site 420889004060 fructose-1,6-bisphosphate binding site; other site 420889004061 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 420889004062 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 420889004063 active site 420889004064 dimer interface [polypeptide binding]; other site 420889004065 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 420889004066 5-bromo-4-chloroindolyl phosphate hydrolysis protein; Region: Halogen_Hydrol; cl02059 420889004067 Tim44-like domain; Region: Tim44; cl09208 420889004068 conserved hypothetical protein; Region: TIGR02328 420889004069 Pyrimidine dimer DNA glycosylase; Region: Pyr_excise; pfam03013 420889004070 Enterocin A Immunity; Region: EntA_Immun; pfam08951 420889004071 Predicted membrane protein [Function unknown]; Region: COG3326 420889004072 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 420889004073 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 420889004074 S-adenosylmethionine binding site [chemical binding]; other site 420889004075 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 420889004076 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 420889004077 Coenzyme A binding pocket [chemical binding]; other site 420889004078 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 420889004079 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 420889004080 Coenzyme A binding pocket [chemical binding]; other site 420889004081 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 420889004082 nucleoside/Zn binding site; other site 420889004083 dimer interface [polypeptide binding]; other site 420889004084 catalytic motif [active] 420889004085 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 420889004086 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 420889004087 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 420889004088 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 420889004089 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 420889004090 active site 420889004091 tetramer interface; other site 420889004092 Listerrria innocua Lin0431 is similar to the N-Utilization Substance G (NusG) N terminal (NGN) insert (DII); Region: Lin0431_like; cd09911 420889004093 trimer interface [polypeptide binding]; other site 420889004094 Predicted membrane protein [Function unknown]; Region: COG4769 420889004095 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 420889004096 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 420889004097 substrate binding pocket [chemical binding]; other site 420889004098 chain length determination region; other site 420889004099 substrate-Mg2+ binding site; other site 420889004100 catalytic residues [active] 420889004101 aspartate-rich region 1; other site 420889004102 active site lid residues [active] 420889004103 aspartate-rich region 2; other site 420889004104 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 420889004105 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 420889004106 S-adenosylmethionine binding site [chemical binding]; other site 420889004107 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 420889004108 active site 420889004109 dimer interface [polypeptide binding]; other site 420889004110 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 420889004111 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 420889004112 heterodimer interface [polypeptide binding]; other site 420889004113 active site 420889004114 FMN binding site [chemical binding]; other site 420889004115 homodimer interface [polypeptide binding]; other site 420889004116 substrate binding site [chemical binding]; other site 420889004117 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 420889004118 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 420889004119 FAD binding pocket [chemical binding]; other site 420889004120 FAD binding motif [chemical binding]; other site 420889004121 phosphate binding motif [ion binding]; other site 420889004122 beta-alpha-beta structure motif; other site 420889004123 NAD binding pocket [chemical binding]; other site 420889004124 Iron coordination center [ion binding]; other site 420889004125 Membrane protease subunit, stomatin/prohibitin family [Amino acid transport and metabolism]; Region: COG4260 420889004126 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 420889004127 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 420889004128 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 420889004129 Repair protein; Region: Repair_PSII; pfam04536 420889004130 Pseudouridine synthase, Escherichia coli RluE; Region: PseudoU_synth_RluE; cd02566 420889004131 pseudouridine synthase; Region: TIGR00093 420889004132 probable active site [active] 420889004133 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 420889004134 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 420889004135 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 420889004136 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 420889004137 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 420889004138 ATP-grasp domain; Region: ATP-grasp_4; cl17255 420889004139 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 420889004140 IMP binding site; other site 420889004141 dimer interface [polypeptide binding]; other site 420889004142 interdomain contacts; other site 420889004143 partial ornithine binding site; other site 420889004144 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 420889004145 ArsC family; Region: ArsC; pfam03960 420889004146 putative catalytic residues [active] 420889004147 thiol/disulfide switch; other site 420889004148 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 420889004149 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 420889004150 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 420889004151 Walker A/P-loop; other site 420889004152 ATP binding site [chemical binding]; other site 420889004153 Q-loop/lid; other site 420889004154 ABC transporter signature motif; other site 420889004155 Walker B; other site 420889004156 D-loop; other site 420889004157 H-loop/switch region; other site 420889004158 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 420889004159 CHAP domain; Region: CHAP; cl17642 420889004160 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 420889004161 Protein of unknown function (DUF3373); Region: DUF3373; pfam11853 420889004162 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 420889004163 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 420889004164 Uncharacterized conserved protein [Function unknown]; Region: COG0398 420889004165 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 420889004166 general stress protein 13; Validated; Region: PRK08059 420889004167 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 420889004168 RNA binding site [nucleotide binding]; other site 420889004169 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 420889004170 active site 420889004171 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 420889004172 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 420889004173 motif II; other site 420889004174 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 420889004175 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 420889004176 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 420889004177 active site 420889004178 phosphorylation site [posttranslational modification] 420889004179 intermolecular recognition site; other site 420889004180 dimerization interface [polypeptide binding]; other site 420889004181 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 420889004182 DNA binding residues [nucleotide binding] 420889004183 dimerization interface [polypeptide binding]; other site 420889004184 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 420889004185 Histidine kinase; Region: HisKA_3; pfam07730 420889004186 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 420889004187 ATP binding site [chemical binding]; other site 420889004188 Mg2+ binding site [ion binding]; other site 420889004189 G-X-G motif; other site 420889004190 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 420889004191 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 420889004192 sequence-specific DNA binding site [nucleotide binding]; other site 420889004193 salt bridge; other site 420889004194 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 420889004195 Transposase; Region: HTH_Tnp_1; pfam01527 420889004196 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 420889004197 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 420889004198 Integrase core domain; Region: rve; pfam00665 420889004199 Integrase core domain; Region: rve_3; pfam13683 420889004200 Polysaccharide lyase family 8, C-terminal beta-sandwich domain; Region: Lyase_8_C; pfam02884 420889004201 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 420889004202 nucleoside/Zn binding site; other site 420889004203 dimer interface [polypeptide binding]; other site 420889004204 catalytic motif [active] 420889004205 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 420889004206 Predicted membrane protein [Function unknown]; Region: COG3619 420889004207 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 420889004208 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 420889004209 Int/Topo IB signature motif; other site 420889004210 Antirestriction protein (ArdA); Region: ArdA; cl01953 420889004211 CHAP domain; Region: CHAP; cl17642 420889004212 Transposase; Region: HTH_Tnp_1; pfam01527 420889004213 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 420889004214 putative transposase OrfB; Reviewed; Region: PHA02517 420889004215 HTH-like domain; Region: HTH_21; pfam13276 420889004216 Integrase core domain; Region: rve; pfam00665 420889004217 Integrase core domain; Region: rve_3; pfam13683 420889004218 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 420889004219 AAA-like domain; Region: AAA_10; pfam12846 420889004220 TcpE family; Region: TcpE; pfam12648 420889004221 translation initiation factor IF-2; Validated; Region: infB; PRK05306 420889004222 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 420889004223 Putative phage replication protein RstA [DNA replication, recombination, and repair]; Region: COG2946 420889004224 Replication initiation factor; Region: Rep_trans; pfam02486 420889004225 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 420889004226 non-specific DNA binding site [nucleotide binding]; other site 420889004227 salt bridge; other site 420889004228 sequence-specific DNA binding site [nucleotide binding]; other site 420889004229 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 420889004230 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 420889004231 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 420889004232 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 420889004233 non-specific DNA binding site [nucleotide binding]; other site 420889004234 salt bridge; other site 420889004235 sequence-specific DNA binding site [nucleotide binding]; other site 420889004236 Domain of unknown function (DUF955); Region: DUF955; cl01076 420889004237 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 420889004238 arsenical-resistance protein; Region: acr3; TIGR00832 420889004239 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 420889004240 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl17341 420889004241 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 420889004242 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 420889004243 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 420889004244 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 420889004245 active site residue [active] 420889004246 arsenical pump-driving ATPase; Region: arsen_driv_ArsA; TIGR04291 420889004247 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 420889004248 P loop; other site 420889004249 Nucleotide binding site [chemical binding]; other site 420889004250 DTAP/Switch II; other site 420889004251 Switch I; other site 420889004252 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 420889004253 DTAP/Switch II; other site 420889004254 Switch I; other site 420889004255 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 420889004256 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 420889004257 dimerization interface [polypeptide binding]; other site 420889004258 putative DNA binding site [nucleotide binding]; other site 420889004259 putative Zn2+ binding site [ion binding]; other site 420889004260 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 420889004261 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 420889004262 NADP binding site [chemical binding]; other site 420889004263 dimer interface [polypeptide binding]; other site 420889004264 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 420889004265 L-lactate permease; Region: Lactate_perm; cl00701 420889004266 Domain of unknown function (DUF389); Region: DUF389; pfam04087 420889004267 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 420889004268 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 420889004269 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 420889004270 ArsC family; Region: ArsC; pfam03960 420889004271 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 420889004272 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 420889004273 DNA-binding site [nucleotide binding]; DNA binding site 420889004274 RNA-binding motif; other site 420889004275 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 420889004276 DNA-binding site [nucleotide binding]; DNA binding site 420889004277 RNA-binding motif; other site 420889004278 CoB--CoM heterodisulfide reductase, subunit B; Region: CoB_CoM_SS_B; TIGR03288 420889004279 Cysteine-rich domain; Region: CCG; pfam02754 420889004280 Cysteine-rich domain; Region: CCG; pfam02754 420889004281 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 420889004282 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 420889004283 Uncharacterized conserved protein [Function unknown]; Region: COG1556 420889004284 Transposase; Region: HTH_Tnp_1; pfam01527 420889004285 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 420889004286 putative transposase OrfB; Reviewed; Region: PHA02517 420889004287 HTH-like domain; Region: HTH_21; pfam13276 420889004288 Integrase core domain; Region: rve; pfam00665 420889004289 Integrase core domain; Region: rve_3; pfam13683 420889004290 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 420889004291 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 420889004292 putative transporter; Provisional; Region: PRK11660 420889004293 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 420889004294 Sulfate transporter family; Region: Sulfate_transp; pfam00916 420889004295 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 420889004296 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 420889004297 Protein of unknown function (DUF1093); Region: DUF1093; cl02185 420889004298 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 420889004299 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 420889004300 Walker A/P-loop; other site 420889004301 ATP binding site [chemical binding]; other site 420889004302 Q-loop/lid; other site 420889004303 ABC transporter signature motif; other site 420889004304 Walker B; other site 420889004305 D-loop; other site 420889004306 H-loop/switch region; other site 420889004307 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 420889004308 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 420889004309 FtsX-like permease family; Region: FtsX; pfam02687 420889004310 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 420889004311 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 420889004312 putative DNA binding site [nucleotide binding]; other site 420889004313 putative Zn2+ binding site [ion binding]; other site 420889004314 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 420889004315 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 420889004316 ATP-binding cassette domain of CydCD, subfamily C; Region: ABCC_cytochrome_bd; cd03247 420889004317 Walker A/P-loop; other site 420889004318 ATP binding site [chemical binding]; other site 420889004319 Q-loop/lid; other site 420889004320 ABC transporter signature motif; other site 420889004321 Walker B; other site 420889004322 D-loop; other site 420889004323 H-loop/switch region; other site 420889004324 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 420889004325 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 420889004326 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 420889004327 Walker A/P-loop; other site 420889004328 ATP binding site [chemical binding]; other site 420889004329 Q-loop/lid; other site 420889004330 ABC transporter signature motif; other site 420889004331 Walker B; other site 420889004332 D-loop; other site 420889004333 H-loop/switch region; other site 420889004334 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 420889004335 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 420889004336 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 420889004337 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 420889004338 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 420889004339 active site 420889004340 homodimer interface [polypeptide binding]; other site 420889004341 catalytic site [active] 420889004342 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 420889004343 homodimer interface [polypeptide binding]; other site 420889004344 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 420889004345 active site pocket [active] 420889004346 glycogen synthase; Provisional; Region: glgA; PRK00654 420889004347 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 420889004348 ADP-binding pocket [chemical binding]; other site 420889004349 homodimer interface [polypeptide binding]; other site 420889004350 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 420889004351 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 420889004352 ligand binding site; other site 420889004353 oligomer interface; other site 420889004354 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 420889004355 dimer interface [polypeptide binding]; other site 420889004356 N-terminal domain interface [polypeptide binding]; other site 420889004357 sulfate 1 binding site; other site 420889004358 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 420889004359 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 420889004360 ligand binding site; other site 420889004361 oligomer interface; other site 420889004362 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 420889004363 dimer interface [polypeptide binding]; other site 420889004364 N-terminal domain interface [polypeptide binding]; other site 420889004365 sulfate 1 binding site; other site 420889004366 transcription antitermination factor NusB; Region: nusB; TIGR01951 420889004367 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 420889004368 elongation factor P; Validated; Region: PRK00529 420889004369 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 420889004370 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 420889004371 RNA binding site [nucleotide binding]; other site 420889004372 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 420889004373 RNA binding site [nucleotide binding]; other site 420889004374 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 420889004375 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 420889004376 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 420889004377 active site 420889004378 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 420889004379 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 420889004380 motif II; other site 420889004381 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 420889004382 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 420889004383 intersubunit interface [polypeptide binding]; other site 420889004384 active site 420889004385 zinc binding site [ion binding]; other site 420889004386 Na+ binding site [ion binding]; other site 420889004387 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 420889004388 ATP binding site [chemical binding]; other site 420889004389 substrate binding site [chemical binding]; other site 420889004390 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 420889004391 putative substrate binding site [chemical binding]; other site 420889004392 putative ATP binding site [chemical binding]; other site 420889004393 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 420889004394 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 420889004395 dimer interface [polypeptide binding]; other site 420889004396 active site 420889004397 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 420889004398 putative active site [active] 420889004399 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 420889004400 PTS system sorbose-specific iic component; Region: EII-Sor; pfam03609 420889004401 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 420889004402 active site 420889004403 phosphorylation site [posttranslational modification] 420889004404 Preprotein translocase subunit; Region: YajC; pfam02699 420889004405 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 420889004406 active pocket/dimerization site; other site 420889004407 active site 420889004408 phosphorylation site [posttranslational modification] 420889004409 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 420889004410 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 420889004411 active site 420889004412 dimer interface [polypeptide binding]; other site 420889004413 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 420889004414 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 420889004415 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 420889004416 putative active site [active] 420889004417 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 420889004418 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 420889004419 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 420889004420 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 420889004421 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 420889004422 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 420889004423 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 420889004424 GIY-YIG motif/motif A; other site 420889004425 putative active site [active] 420889004426 putative metal binding site [ion binding]; other site 420889004427 hypothetical protein; Provisional; Region: PRK00967 420889004428 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 420889004429 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 420889004430 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 420889004431 Thiamine pyrophosphokinase; Region: TPK; cd07995 420889004432 active site 420889004433 dimerization interface [polypeptide binding]; other site 420889004434 thiamine binding site [chemical binding]; other site 420889004435 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 420889004436 putative metal binding site [ion binding]; other site 420889004437 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 420889004438 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 420889004439 putative dimer interface [polypeptide binding]; other site 420889004440 putative anticodon binding site; other site 420889004441 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 420889004442 homodimer interface [polypeptide binding]; other site 420889004443 motif 1; other site 420889004444 motif 2; other site 420889004445 active site 420889004446 motif 3; other site 420889004447 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 420889004448 GIY-YIG motif/motif A; other site 420889004449 active site 420889004450 catalytic site [active] 420889004451 aspartate aminotransferase; Provisional; Region: PRK05764 420889004452 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 420889004453 pyridoxal 5'-phosphate binding site [chemical binding]; other site 420889004454 homodimer interface [polypeptide binding]; other site 420889004455 catalytic residue [active] 420889004456 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 420889004457 DnaQ family exonuclease/DinG family helicase, putative; Region: dinG_rel; TIGR01407 420889004458 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 420889004459 active site 420889004460 catalytic site [active] 420889004461 substrate binding site [chemical binding]; other site 420889004462 DEAD/DEAH box helicase; Region: DEAD; pfam00270 420889004463 ATP binding site [chemical binding]; other site 420889004464 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 420889004465 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 420889004466 Ligand Binding Site [chemical binding]; other site 420889004467 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 420889004468 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 420889004469 Cl binding site [ion binding]; other site 420889004470 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 420889004471 oligomer interface [polypeptide binding]; other site 420889004472 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 420889004473 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 420889004474 Predicted membrane protein [Function unknown]; Region: COG4129 420889004475 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 420889004476 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 420889004477 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 420889004478 putative metal binding site [ion binding]; other site 420889004479 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 420889004480 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 420889004481 S-adenosylmethionine binding site [chemical binding]; other site 420889004482 enolase; Provisional; Region: eno; PRK00077 420889004483 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 420889004484 dimer interface [polypeptide binding]; other site 420889004485 metal binding site [ion binding]; metal-binding site 420889004486 substrate binding pocket [chemical binding]; other site 420889004487 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 420889004488 Coenzyme A binding pocket [chemical binding]; other site 420889004489 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 420889004490 23S rRNA binding site [nucleotide binding]; other site 420889004491 L21 binding site [polypeptide binding]; other site 420889004492 L13 binding site [polypeptide binding]; other site 420889004493 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 420889004494 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 420889004495 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 420889004496 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 420889004497 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 420889004498 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 420889004499 active site 420889004500 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 420889004501 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 420889004502 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 420889004503 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 420889004504 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 420889004505 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 420889004506 Catalytic NodB homology domain of Clostridium thermocellum acetylxylan esterase and its bacterial homologs; Region: CE4_CtAXE_like; cd10954 420889004507 NodB motif; other site 420889004508 active site 420889004509 catalytic site [active] 420889004510 Protein of unknown function (DUF3042); Region: DUF3042; pfam11240 420889004511 Protein of unknown function (DUF3042); Region: DUF3042; pfam11240 420889004512 Protein of unknown function (DUF1048); Region: DUF1048; cl01986 420889004513 Protein of unknown function (DUF1048); Region: DUF1048; cl01986 420889004514 Predicted transcriptional regulators [Transcription]; Region: COG1695 420889004515 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 420889004516 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 420889004517 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 420889004518 active site 420889004519 FMN binding site [chemical binding]; other site 420889004520 substrate binding site [chemical binding]; other site 420889004521 catalytic residues [active] 420889004522 homodimer interface [polypeptide binding]; other site 420889004523 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 420889004524 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 420889004525 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 420889004526 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 420889004527 ABC-ATPase subunit interface; other site 420889004528 dimer interface [polypeptide binding]; other site 420889004529 putative PBP binding regions; other site 420889004530 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 420889004531 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 420889004532 metal binding site [ion binding]; metal-binding site 420889004533 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 420889004534 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 420889004535 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 420889004536 Bacterial protein of unknown function (DUF948); Region: DUF948; cl01972 420889004537 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 420889004538 HPr kinase/phosphorylase; Provisional; Region: PRK05428 420889004539 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 420889004540 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 420889004541 Hpr binding site; other site 420889004542 active site 420889004543 homohexamer subunit interaction site [polypeptide binding]; other site 420889004544 Rifampin ADP-ribosyl transferase; Region: Arr-ms; pfam12120 420889004545 Predicted membrane protein [Function unknown]; Region: COG2246 420889004546 GtrA-like protein; Region: GtrA; pfam04138 420889004547 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 420889004548 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 420889004549 active site 420889004550 flavodoxin; Validated; Region: PRK07308 420889004551 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 420889004552 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 420889004553 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 420889004554 Acylphosphatase; Region: Acylphosphatase; cl00551 420889004555 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 420889004556 Lysozyme-like; Region: Lysozyme_like; pfam13702 420889004557 catalytic residue [active] 420889004558 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 420889004559 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 420889004560 dimer interface [polypeptide binding]; other site 420889004561 active site 420889004562 glycine-pyridoxal phosphate binding site [chemical binding]; other site 420889004563 folate binding site [chemical binding]; other site 420889004564 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 420889004565 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 420889004566 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 420889004567 Coenzyme A binding pocket [chemical binding]; other site 420889004568 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 420889004569 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 420889004570 S-adenosylmethionine binding site [chemical binding]; other site 420889004571 peptide chain release factor 1; Validated; Region: prfA; PRK00591 420889004572 This domain is found in peptide chain release factors; Region: PCRF; smart00937 420889004573 RF-1 domain; Region: RF-1; pfam00472 420889004574 thymidine kinase; Provisional; Region: PRK04296 420889004575 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 420889004576 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 420889004577 active site 420889004578 DNA binding site [nucleotide binding] 420889004579 Int/Topo IB signature motif; other site 420889004580 Transposase; Region: HTH_Tnp_1; pfam01527 420889004581 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 420889004582 putative transposase OrfB; Reviewed; Region: PHA02517 420889004583 HTH-like domain; Region: HTH_21; pfam13276 420889004584 Integrase core domain; Region: rve; pfam00665 420889004585 Integrase core domain; Region: rve_3; pfam13683 420889004586 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 420889004587 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 420889004588 B3/4 domain; Region: B3_4; pfam03483 420889004589 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 420889004590 dimer interface [polypeptide binding]; other site 420889004591 FMN binding site [chemical binding]; other site 420889004592 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 420889004593 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 420889004594 putative DNA binding site [nucleotide binding]; other site 420889004595 putative Zn2+ binding site [ion binding]; other site 420889004596 MepB protein; Region: MepB; pfam08877 420889004597 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 420889004598 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 420889004599 MarR family; Region: MarR_2; pfam12802 420889004600 Zeta-crystallin with NADP-dependent quinone reductase activity (QOR); Region: zeta_crystallin; cd08253 420889004601 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 420889004602 NAD(P) binding site [chemical binding]; other site 420889004603 K+ potassium transporter; Region: K_trans; cl15781 420889004604 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 420889004605 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 420889004606 active site 420889004607 homodimer interface [polypeptide binding]; other site 420889004608 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 420889004609 EAL domain; Region: EAL; pfam00563 420889004610 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 420889004611 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 420889004612 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 420889004613 active site 420889004614 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 420889004615 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 420889004616 Walker A/P-loop; other site 420889004617 ATP binding site [chemical binding]; other site 420889004618 Q-loop/lid; other site 420889004619 ABC transporter signature motif; other site 420889004620 Walker B; other site 420889004621 D-loop; other site 420889004622 H-loop/switch region; other site 420889004623 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 420889004624 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 420889004625 FtsX-like permease family; Region: FtsX; pfam02687 420889004626 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 420889004627 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 420889004628 CsbD-like; Region: CsbD; pfam05532 420889004629 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 420889004630 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 420889004631 dimer interface [polypeptide binding]; other site 420889004632 phosphorylation site [posttranslational modification] 420889004633 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 420889004634 ATP binding site [chemical binding]; other site 420889004635 Mg2+ binding site [ion binding]; other site 420889004636 G-X-G motif; other site 420889004637 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 420889004638 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 420889004639 active site 420889004640 phosphorylation site [posttranslational modification] 420889004641 intermolecular recognition site; other site 420889004642 dimerization interface [polypeptide binding]; other site 420889004643 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 420889004644 DNA binding site [nucleotide binding] 420889004645 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 420889004646 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 420889004647 active site 420889004648 motif I; other site 420889004649 motif II; other site 420889004650 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 420889004651 Collagen binding domain; Region: Collagen_bind; pfam05737 420889004652 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 420889004653 amphipathic channel; other site 420889004654 Asn-Pro-Ala signature motifs; other site 420889004655 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 420889004656 Tautomerase enzyme; Region: Tautomerase; pfam01361 420889004657 active site 1 [active] 420889004658 dimer interface [polypeptide binding]; other site 420889004659 hexamer interface [polypeptide binding]; other site 420889004660 active site 2 [active] 420889004661 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 420889004662 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 420889004663 phosphopantothenoylcysteine decarboxylase, streptococcal; Region: coaC_strep; TIGR02113 420889004664 Flavoprotein; Region: Flavoprotein; pfam02441 420889004665 Predicted membrane protein [Function unknown]; Region: COG4684 420889004666 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 420889004667 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 420889004668 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 420889004669 active site 420889004670 substrate binding site [chemical binding]; other site 420889004671 metal binding site [ion binding]; metal-binding site 420889004672 OxaA-like protein precursor; Provisional; Region: PRK02463 420889004673 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 420889004674 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 420889004675 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 420889004676 ligand binding site [chemical binding]; other site 420889004677 flexible hinge region; other site 420889004678 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 420889004679 putative switch regulator; other site 420889004680 non-specific DNA interactions [nucleotide binding]; other site 420889004681 DNA binding site [nucleotide binding] 420889004682 sequence specific DNA binding site [nucleotide binding]; other site 420889004683 putative cAMP binding site [chemical binding]; other site 420889004684 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 420889004685 Major Facilitator Superfamily; Region: MFS_1; pfam07690 420889004686 putative substrate translocation pore; other site 420889004687 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06079 420889004688 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 420889004689 NAD binding site [chemical binding]; other site 420889004690 homotetramer interface [polypeptide binding]; other site 420889004691 homodimer interface [polypeptide binding]; other site 420889004692 substrate binding site [chemical binding]; other site 420889004693 active site 420889004694 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 420889004695 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 420889004696 putative active site cavity [active] 420889004697 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 420889004698 excinuclease ABC subunit B; Provisional; Region: PRK05298 420889004699 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 420889004700 ATP binding site [chemical binding]; other site 420889004701 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 420889004702 nucleotide binding region [chemical binding]; other site 420889004703 ATP-binding site [chemical binding]; other site 420889004704 Ultra-violet resistance protein B; Region: UvrB; pfam12344 420889004705 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 420889004706 putative active site [active] 420889004707 Ap4A binding site [chemical binding]; other site 420889004708 nudix motif; other site 420889004709 putative metal binding site [ion binding]; other site 420889004710 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 420889004711 active site 420889004712 catalytic residues [active] 420889004713 metal binding site [ion binding]; metal-binding site 420889004714 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 420889004715 active site 420889004716 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 420889004717 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 420889004718 Walker A motif; other site 420889004719 ATP binding site [chemical binding]; other site 420889004720 Walker B motif; other site 420889004721 arginine finger; other site 420889004722 UvrB/uvrC motif; Region: UVR; pfam02151 420889004723 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 420889004724 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 420889004725 Walker A motif; other site 420889004726 ATP binding site [chemical binding]; other site 420889004727 Walker B motif; other site 420889004728 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 420889004729 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 420889004730 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 420889004731 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 420889004732 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 420889004733 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 420889004734 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 420889004735 DNA binding residues [nucleotide binding] 420889004736 CHC2 zinc finger; Region: zf-CHC2; pfam01807 420889004737 DNA primase; Validated; Region: dnaG; PRK05667 420889004738 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 420889004739 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 420889004740 active site 420889004741 metal binding site [ion binding]; metal-binding site 420889004742 interdomain interaction site; other site 420889004743 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 420889004744 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 420889004745 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 420889004746 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 420889004747 Protein of unknown function (DUF1033); Region: DUF1033; pfam06279 420889004748 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 420889004749 active site 420889004750 metal binding site [ion binding]; metal-binding site 420889004751 dimerization interface [polypeptide binding]; other site 420889004752 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 420889004753 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 420889004754 active site 420889004755 HIGH motif; other site 420889004756 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 420889004757 KMSKS motif; other site 420889004758 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 420889004759 tRNA binding surface [nucleotide binding]; other site 420889004760 anticodon binding site; other site 420889004761 serine O-acetyltransferase; Region: cysE; TIGR01172 420889004762 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 420889004763 trimer interface [polypeptide binding]; other site 420889004764 active site 420889004765 substrate binding site [chemical binding]; other site 420889004766 CoA binding site [chemical binding]; other site 420889004767 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 420889004768 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 420889004769 RNase E interface [polypeptide binding]; other site 420889004770 trimer interface [polypeptide binding]; other site 420889004771 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 420889004772 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 420889004773 RNase E interface [polypeptide binding]; other site 420889004774 trimer interface [polypeptide binding]; other site 420889004775 active site 420889004776 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 420889004777 putative nucleic acid binding region [nucleotide binding]; other site 420889004778 G-X-X-G motif; other site 420889004779 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 420889004780 RNA binding site [nucleotide binding]; other site 420889004781 domain interface; other site 420889004782 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 420889004783 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 420889004784 Walker A/P-loop; other site 420889004785 ATP binding site [chemical binding]; other site 420889004786 Q-loop/lid; other site 420889004787 ABC transporter signature motif; other site 420889004788 Walker B; other site 420889004789 D-loop; other site 420889004790 H-loop/switch region; other site 420889004791 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 420889004792 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 420889004793 ABC-ATPase subunit interface; other site 420889004794 dimer interface [polypeptide binding]; other site 420889004795 putative PBP binding regions; other site 420889004796 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 420889004797 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 420889004798 intersubunit interface [polypeptide binding]; other site 420889004799 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02458 420889004800 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 420889004801 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 420889004802 active site 420889004803 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 420889004804 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 420889004805 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 420889004806 catalytic residue [active] 420889004807 Putative amino acid metabolism; Region: DUF1831; pfam08866 420889004808 elongation factor Tu; Reviewed; Region: PRK00049 420889004809 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 420889004810 G1 box; other site 420889004811 GEF interaction site [polypeptide binding]; other site 420889004812 GTP/Mg2+ binding site [chemical binding]; other site 420889004813 Switch I region; other site 420889004814 G2 box; other site 420889004815 G3 box; other site 420889004816 Switch II region; other site 420889004817 G4 box; other site 420889004818 G5 box; other site 420889004819 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 420889004820 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 420889004821 Antibiotic Binding Site [chemical binding]; other site 420889004822 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 420889004823 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 420889004824 active site 420889004825 HIGH motif; other site 420889004826 nucleotide binding site [chemical binding]; other site 420889004827 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 420889004828 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 420889004829 active site 420889004830 KMSKS motif; other site 420889004831 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 420889004832 tRNA binding surface [nucleotide binding]; other site 420889004833 anticodon binding site; other site 420889004834 DivIVA domain; Region: DivI1A_domain; TIGR03544 420889004835 Cell division initiation protein [Cell division and chromosome partitioning]; Region: DivIVA; COG3599 420889004836 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 420889004837 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 420889004838 RNA binding surface [nucleotide binding]; other site 420889004839 YGGT family; Region: YGGT; pfam02325 420889004840 Protein of unknown function (DUF552); Region: DUF552; cl00775 420889004841 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 420889004842 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 420889004843 catalytic residue [active] 420889004844 cell division protein FtsZ; Validated; Region: PRK09330 420889004845 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 420889004846 nucleotide binding site [chemical binding]; other site 420889004847 SulA interaction site; other site 420889004848 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 420889004849 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 420889004850 nucleotide binding site [chemical binding]; other site 420889004851 Cell division protein FtsA; Region: FtsA; pfam14450 420889004852 EDD domain protein, DegV family; Region: DegV; TIGR00762 420889004853 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 420889004854 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 420889004855 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 420889004856 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 420889004857 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 420889004858 trimer interface [polypeptide binding]; other site 420889004859 active site 420889004860 G bulge; other site 420889004861 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 420889004862 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 420889004863 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 420889004864 dimer interface [polypeptide binding]; other site 420889004865 ADP-ribose binding site [chemical binding]; other site 420889004866 active site 420889004867 nudix motif; other site 420889004868 metal binding site [ion binding]; metal-binding site 420889004869 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 420889004870 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 420889004871 Substrate binding site; other site 420889004872 Mg++ binding site; other site 420889004873 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 420889004874 active site 420889004875 substrate binding site [chemical binding]; other site 420889004876 CoA binding site [chemical binding]; other site 420889004877 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 420889004878 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 420889004879 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 420889004880 16S/18S rRNA binding site [nucleotide binding]; other site 420889004881 S13e-L30e interaction site [polypeptide binding]; other site 420889004882 25S rRNA binding site [nucleotide binding]; other site 420889004883 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 420889004884 Catalytic domain of Protein Kinases; Region: PKc; cd00180 420889004885 active site 420889004886 ATP binding site [chemical binding]; other site 420889004887 substrate binding site [chemical binding]; other site 420889004888 activation loop (A-loop); other site 420889004889 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 420889004890 PASTA domain; Region: PASTA; smart00740 420889004891 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 420889004892 active site 420889004893 16S rRNA methyltransferase B; Provisional; Region: PRK14902 420889004894 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 420889004895 putative RNA binding site [nucleotide binding]; other site 420889004896 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 420889004897 S-adenosylmethionine binding site [chemical binding]; other site 420889004898 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 420889004899 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 420889004900 putative active site [active] 420889004901 substrate binding site [chemical binding]; other site 420889004902 putative cosubstrate binding site; other site 420889004903 catalytic site [active] 420889004904 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 420889004905 substrate binding site [chemical binding]; other site 420889004906 Nucleoside 2-deoxyribosyltransferase [Nucleotide transport and metabolism]; Region: COG3613 420889004907 Possible lysine decarboxylase; Region: Lysine_decarbox; pfam03641 420889004908 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 420889004909 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 420889004910 Substrate-binding site [chemical binding]; other site 420889004911 Substrate specificity [chemical binding]; other site 420889004912 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 420889004913 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 420889004914 ATP binding site [chemical binding]; other site 420889004915 putative Mg++ binding site [ion binding]; other site 420889004916 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 420889004917 nucleotide binding region [chemical binding]; other site 420889004918 ATP-binding site [chemical binding]; other site 420889004919 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 420889004920 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 420889004921 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 420889004922 catalytic site [active] 420889004923 G-X2-G-X-G-K; other site 420889004924 phosphodiesterase; Provisional; Region: PRK12704 420889004925 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 420889004926 Zn2+ binding site [ion binding]; other site 420889004927 Mg2+ binding site [ion binding]; other site 420889004928 S-adenosylmethionine synthetase; Validated; Region: PRK05250 420889004929 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 420889004930 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 420889004931 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 420889004932 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 420889004933 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 420889004934 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 420889004935 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 420889004936 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 420889004937 Putative stress-responsive transcriptional regulator [Transcription / Signal transduction mechanisms]; Region: PspC; COG1983 420889004938 Uncharacterized conserved protein [Function unknown]; Region: COG3595 420889004939 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 420889004940 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 420889004941 CHAP domain; Region: CHAP; pfam05257 420889004942 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 420889004943 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 420889004944 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 420889004945 beta-galactosidase; Region: BGL; TIGR03356 420889004946 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 420889004947 beta-galactosidase; Region: BGL; TIGR03356 420889004948 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 420889004949 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 420889004950 active site turn [active] 420889004951 phosphorylation site [posttranslational modification] 420889004952 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 420889004953 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 420889004954 HPr interaction site; other site 420889004955 glycerol kinase (GK) interaction site [polypeptide binding]; other site 420889004956 active site 420889004957 phosphorylation site [posttranslational modification] 420889004958 transcriptional antiterminator BglG; Provisional; Region: PRK09772 420889004959 CAT RNA binding domain; Region: CAT_RBD; smart01061 420889004960 PRD domain; Region: PRD; pfam00874 420889004961 PRD domain; Region: PRD; pfam00874 420889004962 Uncharacterized protein/domain associated with GTPases [Function unknown]; Region: COG3597 420889004963 Transposase; Region: DEDD_Tnp_IS110; pfam01548 420889004964 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 420889004965 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 420889004966 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 420889004967 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 420889004968 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 420889004969 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 420889004970 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 420889004971 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 420889004972 intersubunit interface [polypeptide binding]; other site 420889004973 active site 420889004974 zinc binding site [ion binding]; other site 420889004975 Na+ binding site [ion binding]; other site 420889004976 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 420889004977 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 420889004978 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 420889004979 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 420889004980 active site 420889004981 dimer interface [polypeptide binding]; other site 420889004982 motif 1; other site 420889004983 motif 2; other site 420889004984 motif 3; other site 420889004985 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 420889004986 anticodon binding site; other site 420889004987 Ferrochelatase; Region: Ferrochelatase; pfam00762 420889004988 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 420889004989 C-terminal domain interface [polypeptide binding]; other site 420889004990 active site 420889004991 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 420889004992 active site 420889004993 N-terminal domain interface [polypeptide binding]; other site 420889004994 ATP cone domain; Region: ATP-cone; pfam03477 420889004995 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 420889004996 dimer interface [polypeptide binding]; other site 420889004997 FMN binding site [chemical binding]; other site 420889004998 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 420889004999 active site 420889005000 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 420889005001 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 420889005002 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 420889005003 active site 420889005004 catalytic residues [active] 420889005005 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 420889005006 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 420889005007 generic binding surface II; other site 420889005008 generic binding surface I; other site 420889005009 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 420889005010 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 420889005011 RmuC family; Region: RmuC; pfam02646 420889005012 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 420889005013 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 420889005014 substrate binding site [chemical binding]; other site 420889005015 hexamer interface [polypeptide binding]; other site 420889005016 metal binding site [ion binding]; metal-binding site 420889005017 GTPase RsgA; Reviewed; Region: PRK00098 420889005018 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 420889005019 RNA binding site [nucleotide binding]; other site 420889005020 homodimer interface [polypeptide binding]; other site 420889005021 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 420889005022 GTPase/Zn-binding domain interface [polypeptide binding]; other site 420889005023 GTP/Mg2+ binding site [chemical binding]; other site 420889005024 G4 box; other site 420889005025 G1 box; other site 420889005026 Switch I region; other site 420889005027 G2 box; other site 420889005028 G3 box; other site 420889005029 Switch II region; other site 420889005030 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 420889005031 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 420889005032 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 420889005033 non-specific DNA binding site [nucleotide binding]; other site 420889005034 salt bridge; other site 420889005035 sequence-specific DNA binding site [nucleotide binding]; other site 420889005036 Predicted transcriptional regulator [Transcription]; Region: COG2932 420889005037 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 420889005038 Catalytic site [active] 420889005039 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 420889005040 3D domain; Region: 3D; cl01439 420889005041 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 420889005042 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 420889005043 putative tRNA-binding site [nucleotide binding]; other site 420889005044 B3/4 domain; Region: B3_4; pfam03483 420889005045 tRNA synthetase B5 domain; Region: B5; smart00874 420889005046 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 420889005047 dimer interface [polypeptide binding]; other site 420889005048 motif 1; other site 420889005049 motif 3; other site 420889005050 motif 2; other site 420889005051 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 420889005052 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 420889005053 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 420889005054 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 420889005055 dimer interface [polypeptide binding]; other site 420889005056 motif 1; other site 420889005057 active site 420889005058 motif 2; other site 420889005059 motif 3; other site 420889005060 Transposase; Region: HTH_Tnp_1; pfam01527 420889005061 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 420889005062 putative transposase OrfB; Reviewed; Region: PHA02517 420889005063 HTH-like domain; Region: HTH_21; pfam13276 420889005064 Integrase core domain; Region: rve; pfam00665 420889005065 Integrase core domain; Region: rve_3; pfam13683 420889005066 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 420889005067 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 420889005068 GDP-binding site [chemical binding]; other site 420889005069 ACT binding site; other site 420889005070 IMP binding site; other site 420889005071 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 420889005072 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 420889005073 dimerization interface [polypeptide binding]; other site 420889005074 domain crossover interface; other site 420889005075 redox-dependent activation switch; other site 420889005076 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 420889005077 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 420889005078 Cl- selectivity filter; other site 420889005079 Cl- binding residues [ion binding]; other site 420889005080 pore gating glutamate residue; other site 420889005081 dimer interface [polypeptide binding]; other site 420889005082 H+/Cl- coupling transport residue; other site 420889005083 TrkA-C domain; Region: TrkA_C; pfam02080 420889005084 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 420889005085 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 420889005086 FMN binding site [chemical binding]; other site 420889005087 active site 420889005088 catalytic residues [active] 420889005089 substrate binding site [chemical binding]; other site 420889005090 Uncharacterized conserved protein [Function unknown]; Region: COG1284 420889005091 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 420889005092 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 420889005093 Uncharacterized conserved protein [Function unknown]; Region: COG1284 420889005094 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 420889005095 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 420889005096 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 420889005097 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 420889005098 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 420889005099 dimer interface [polypeptide binding]; other site 420889005100 anticodon binding site; other site 420889005101 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 420889005102 homodimer interface [polypeptide binding]; other site 420889005103 motif 1; other site 420889005104 active site 420889005105 motif 2; other site 420889005106 GAD domain; Region: GAD; pfam02938 420889005107 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 420889005108 active site 420889005109 motif 3; other site 420889005110 histidyl-tRNA synthetase; Region: hisS; TIGR00442 420889005111 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 420889005112 dimer interface [polypeptide binding]; other site 420889005113 motif 1; other site 420889005114 active site 420889005115 motif 2; other site 420889005116 motif 3; other site 420889005117 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 420889005118 anticodon binding site; other site 420889005119 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 420889005120 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 420889005121 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 420889005122 non-specific DNA binding site [nucleotide binding]; other site 420889005123 salt bridge; other site 420889005124 sequence-specific DNA binding site [nucleotide binding]; other site 420889005125 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 420889005126 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 420889005127 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 420889005128 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 420889005129 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 420889005130 S4 domain protein YaaA; Region: YaaA_near_RecF; TIGR02988 420889005131 recombination protein F; Reviewed; Region: recF; PRK00064 420889005132 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 420889005133 Walker A/P-loop; other site 420889005134 ATP binding site [chemical binding]; other site 420889005135 Q-loop/lid; other site 420889005136 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 420889005137 ABC transporter signature motif; other site 420889005138 Walker B; other site 420889005139 D-loop; other site 420889005140 H-loop/switch region; other site 420889005141 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 420889005142 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 420889005143 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 420889005144 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 420889005145 NAD binding site [chemical binding]; other site 420889005146 homodimer interface [polypeptide binding]; other site 420889005147 active site 420889005148 substrate binding site [chemical binding]; other site 420889005149 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 420889005150 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 420889005151 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 420889005152 galactokinase; Provisional; Region: PRK05322 420889005153 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 420889005154 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 420889005155 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 420889005156 active site 420889005157 catalytic residues [active] 420889005158 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 420889005159 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 420889005160 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 420889005161 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 420889005162 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 420889005163 putative active site [active] 420889005164 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 420889005165 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 420889005166 active site 420889005167 nucleotide binding site [chemical binding]; other site 420889005168 HIGH motif; other site 420889005169 KMSKS motif; other site 420889005170 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 420889005171 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 420889005172 Peptidase family U32; Region: Peptidase_U32; pfam01136 420889005173 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 420889005174 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 420889005175 NADP binding site [chemical binding]; other site 420889005176 dimer interface [polypeptide binding]; other site 420889005177 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 420889005178 Peptidase family U32; Region: Peptidase_U32; pfam01136 420889005179 Protein of unknown function (DUF3270); Region: DUF3270; pfam11674 420889005180 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 420889005181 Methyltransferase domain; Region: Methyltransf_11; pfam08241 420889005182 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 420889005183 Bacterial ABC transporter protein EcsB; Region: EcsB; cl11542 420889005184 Bacterial ABC transporter protein EcsB; Region: EcsB; pfam05975 420889005185 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 420889005186 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 420889005187 Walker A/P-loop; other site 420889005188 ATP binding site [chemical binding]; other site 420889005189 Q-loop/lid; other site 420889005190 ABC transporter signature motif; other site 420889005191 Walker B; other site 420889005192 D-loop; other site 420889005193 H-loop/switch region; other site 420889005194 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 420889005195 HIT family signature motif; other site 420889005196 catalytic residue [active] 420889005197 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 420889005198 mRNA/rRNA interface [nucleotide binding]; other site 420889005199 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 420889005200 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 420889005201 23S rRNA interface [nucleotide binding]; other site 420889005202 L7/L12 interface [polypeptide binding]; other site 420889005203 putative thiostrepton binding site; other site 420889005204 L25 interface [polypeptide binding]; other site 420889005205 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 420889005206 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 420889005207 Walker A/P-loop; other site 420889005208 ATP binding site [chemical binding]; other site 420889005209 Q-loop/lid; other site 420889005210 ABC transporter signature motif; other site 420889005211 Walker B; other site 420889005212 D-loop; other site 420889005213 H-loop/switch region; other site 420889005214 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 420889005215 bacteriocin-associated integral membrane (putative immunity) protein; Region: bact_immun_7tm; TIGR01654 420889005216 glutamine ABC transporter ATP-binding protein; Reviewed; Region: glnQ; PRK09493 420889005217 bacteriocin-associated integral membrane (putative immunity) protein; Region: bact_immun_7tm; TIGR01654 420889005218 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 420889005219 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 420889005220 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 420889005221 dimer interface [polypeptide binding]; other site 420889005222 active site 420889005223 metal binding site [ion binding]; metal-binding site 420889005224 glutathione binding site [chemical binding]; other site 420889005225 hypothetical protein; Provisional; Region: PRK13672 420889005226 methionine sulfoxide reductase A; Provisional; Region: PRK14054 420889005227 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 420889005228 S1 domain; Region: S1_2; pfam13509 420889005229 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 420889005230 RNA binding site [nucleotide binding]; other site 420889005231 ribosome recycling factor; Reviewed; Region: frr; PRK00083 420889005232 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 420889005233 hinge region; other site 420889005234 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 420889005235 putative nucleotide binding site [chemical binding]; other site 420889005236 uridine monophosphate binding site [chemical binding]; other site 420889005237 homohexameric interface [polypeptide binding]; other site 420889005238 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 420889005239 propionate/acetate kinase; Provisional; Region: PRK12379 420889005240 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 420889005241 propionate/acetate kinase; Provisional; Region: PRK12379 420889005242 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 420889005243 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 420889005244 S-adenosylmethionine binding site [chemical binding]; other site 420889005245 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 420889005246 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 420889005247 G1 box; other site 420889005248 putative GEF interaction site [polypeptide binding]; other site 420889005249 GTP/Mg2+ binding site [chemical binding]; other site 420889005250 Switch I region; other site 420889005251 G2 box; other site 420889005252 G3 box; other site 420889005253 Switch II region; other site 420889005254 G4 box; other site 420889005255 G5 box; other site 420889005256 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 420889005257 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 420889005258 Bacterial protein of unknown function (DUF910); Region: DUF910; pfam06014 420889005259 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 420889005260 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 420889005261 nucleotide binding site [chemical binding]; other site 420889005262 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 420889005263 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 420889005264 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 420889005265 dimerization interface [polypeptide binding]; other site 420889005266 DPS ferroxidase diiron center [ion binding]; other site 420889005267 ion pore; other site 420889005268 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 420889005269 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 420889005270 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 420889005271 active site 420889005272 DNA polymerase IV; Validated; Region: PRK02406 420889005273 DNA binding site [nucleotide binding] 420889005274 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 420889005275 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 420889005276 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 420889005277 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 420889005278 SWIM zinc finger; Region: SWIM; pfam04434 420889005279 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 420889005280 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 420889005281 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 420889005282 ATP binding site [chemical binding]; other site 420889005283 putative Mg++ binding site [ion binding]; other site 420889005284 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 420889005285 nucleotide binding region [chemical binding]; other site 420889005286 ATP-binding site [chemical binding]; other site 420889005287 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 420889005288 Beta-lactamase; Region: Beta-lactamase; pfam00144 420889005289 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 420889005290 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 420889005291 CAAX protease self-immunity; Region: Abi; pfam02517 420889005292 Thiamine transporter protein (Thia_YuaJ); Region: Thia_YuaJ; cl17491 420889005293 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 420889005294 putative deacylase active site [active] 420889005295 Uncharacterized protein conserved in bacteria (DUF2128); Region: DUF2128; pfam09901 420889005296 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 420889005297 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 420889005298 hinge; other site 420889005299 active site 420889005300 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 420889005301 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 420889005302 D1, D2 subunits of photosystem II (PSII); M, L subunits of bacterial photosynthetic reaction center; Region: Photo_RC; cl08220 420889005303 Fe binding site [ion binding]; other site 420889005304 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 420889005305 Walker A/P-loop; other site 420889005306 ATP binding site [chemical binding]; other site 420889005307 Q-loop/lid; other site 420889005308 ABC transporter signature motif; other site 420889005309 Walker B; other site 420889005310 D-loop; other site 420889005311 H-loop/switch region; other site 420889005312 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 420889005313 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 420889005314 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 420889005315 Walker A/P-loop; other site 420889005316 ATP binding site [chemical binding]; other site 420889005317 Q-loop/lid; other site 420889005318 ABC transporter signature motif; other site 420889005319 Walker B; other site 420889005320 D-loop; other site 420889005321 H-loop/switch region; other site 420889005322 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 420889005323 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 420889005324 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 420889005325 MarR family; Region: MarR; pfam01047 420889005326 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 420889005327 Major Facilitator Superfamily; Region: MFS_1; pfam07690 420889005328 putative substrate translocation pore; other site 420889005329 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 420889005330 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 420889005331 Zn binding site [ion binding]; other site 420889005332 UGMP family protein; Validated; Region: PRK09604 420889005333 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 420889005334 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 420889005335 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 420889005336 Coenzyme A binding pocket [chemical binding]; other site 420889005337 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 420889005338 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 420889005339 Coenzyme A binding pocket [chemical binding]; other site 420889005340 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 420889005341 Glycoprotease family; Region: Peptidase_M22; pfam00814 420889005342 Protein of unknown function (DUF1447); Region: DUF1447; pfam07288 420889005343 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 420889005344 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 420889005345 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 420889005346 VanZ like family; Region: VanZ; pfam04892 420889005347 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 420889005348 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 420889005349 active site 420889005350 hypothetical protein; Provisional; Region: PRK04351 420889005351 SprT homologues; Region: SprT; cl01182 420889005352 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 420889005353 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 420889005354 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 420889005355 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 420889005356 RNA binding site [nucleotide binding]; other site 420889005357 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 420889005358 dimer interface [polypeptide binding]; other site 420889005359 FMN binding site [chemical binding]; other site 420889005360 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 420889005361 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 420889005362 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 420889005363 Int/Topo IB signature motif; other site 420889005364 Abi-like protein; Region: Abi_2; pfam07751 420889005365 Enterocin A Immunity; Region: EntA_Immun; pfam08951 420889005366 Enterocin A Immunity; Region: EntA_Immun; pfam08951 420889005367 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 420889005368 non-specific DNA binding site [nucleotide binding]; other site 420889005369 salt bridge; other site 420889005370 sequence-specific DNA binding site [nucleotide binding]; other site 420889005371 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 420889005372 BRO family, N-terminal domain; Region: Bro-N; cl10591 420889005373 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 420889005374 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 420889005375 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 420889005376 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 420889005377 RNA binding surface [nucleotide binding]; other site 420889005378 putative fructoselysine transporter; Provisional; Region: frlA; PRK11357 420889005379 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 420889005380 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 420889005381 Walker A/P-loop; other site 420889005382 ATP binding site [chemical binding]; other site 420889005383 Q-loop/lid; other site 420889005384 ABC transporter signature motif; other site 420889005385 Walker B; other site 420889005386 D-loop; other site 420889005387 H-loop/switch region; other site 420889005388 bacteriocin-associated integral membrane (putative immunity) protein; Region: bact_immun_7tm; TIGR01654 420889005389 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 420889005390 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 420889005391 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13649 420889005392 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 420889005393 Walker A/P-loop; other site 420889005394 ATP binding site [chemical binding]; other site 420889005395 Q-loop/lid; other site 420889005396 ABC transporter signature motif; other site 420889005397 Walker B; other site 420889005398 D-loop; other site 420889005399 H-loop/switch region; other site 420889005400 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13650 420889005401 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 420889005402 Walker A/P-loop; other site 420889005403 ATP binding site [chemical binding]; other site 420889005404 Q-loop/lid; other site 420889005405 ABC transporter signature motif; other site 420889005406 Walker B; other site 420889005407 D-loop; other site 420889005408 H-loop/switch region; other site 420889005409 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 420889005410 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 420889005411 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 420889005412 FeS/SAM binding site; other site 420889005413 Amino acid permease; Region: AA_permease_2; pfam13520 420889005414 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 420889005415 ATP cone domain; Region: ATP-cone; pfam03477 420889005416 Class III ribonucleotide reductase; Region: RNR_III; cd01675 420889005417 effector binding site; other site 420889005418 active site 420889005419 Zn binding site [ion binding]; other site 420889005420 glycine loop; other site 420889005421 Isochorismatase family; Region: Isochorismatase; pfam00857 420889005422 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 420889005423 catalytic triad [active] 420889005424 conserved cis-peptide bond; other site 420889005425 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 420889005426 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 420889005427 L-threonine dehydrogenase, extended (e) SDRs; Region: TDH_SDR_e; cd05272 420889005428 NAD binding site [chemical binding]; other site 420889005429 homodimer interface [polypeptide binding]; other site 420889005430 active site 420889005431 putative substrate binding site [chemical binding]; other site 420889005432 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 420889005433 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 420889005434 substrate-cofactor binding pocket; other site 420889005435 pyridoxal 5'-phosphate binding site [chemical binding]; other site 420889005436 catalytic residue [active] 420889005437 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 420889005438 tetramer interface [polypeptide binding]; other site 420889005439 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 420889005440 pyridoxal 5'-phosphate binding site [chemical binding]; other site 420889005441 catalytic residue [active] 420889005442 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 420889005443 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 420889005444 hexamer interface [polypeptide binding]; other site 420889005445 ligand binding site [chemical binding]; other site 420889005446 putative active site [active] 420889005447 NAD(P) binding site [chemical binding]; other site 420889005448 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 420889005449 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 420889005450 active site 420889005451 catalytic tetrad [active] 420889005452 S-ribosylhomocysteinase; Provisional; Region: PRK02260 420889005453 putative oxidoreductase; Provisional; Region: PRK10206 420889005454 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 420889005455 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 420889005456 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 420889005457 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 420889005458 Walker A/P-loop; other site 420889005459 ATP binding site [chemical binding]; other site 420889005460 Q-loop/lid; other site 420889005461 ABC transporter signature motif; other site 420889005462 Walker B; other site 420889005463 D-loop; other site 420889005464 H-loop/switch region; other site 420889005465 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 420889005466 ABC-ATPase subunit interface; other site 420889005467 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 420889005468 HI0933-like protein; Region: HI0933_like; pfam03486 420889005469 Uncharacterized conserved protein [Function unknown]; Region: COG1434 420889005470 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 420889005471 putative active site [active] 420889005472 TraX protein; Region: TraX; cl05434 420889005473 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 420889005474 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 420889005475 putative RNA binding site [nucleotide binding]; other site 420889005476 Methyltransferase domain; Region: Methyltransf_26; pfam13659 420889005477 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 420889005478 Phosphoglycerate kinase; Region: PGK; pfam00162 420889005479 substrate binding site [chemical binding]; other site 420889005480 hinge regions; other site 420889005481 ADP binding site [chemical binding]; other site 420889005482 catalytic site [active] 420889005483 Protein of unknown function (DUF4238); Region: DUF4238; pfam14022 420889005484 Protein of unknown function (DUF4238); Region: DUF4238; pfam14022 420889005485 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 420889005486 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 420889005487 generic binding surface II; other site 420889005488 generic binding surface I; other site 420889005489 DNA polymerase III, alpha chain, Gram-positive type; Region: polC_Gram_pos; TIGR01405 420889005490 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 420889005491 generic binding surface II; other site 420889005492 generic binding surface I; other site 420889005493 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 420889005494 active site 420889005495 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 420889005496 active site 420889005497 catalytic site [active] 420889005498 substrate binding site [chemical binding]; other site 420889005499 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 420889005500 prolyl-tRNA synthetase; Provisional; Region: PRK09194 420889005501 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 420889005502 dimer interface [polypeptide binding]; other site 420889005503 motif 1; other site 420889005504 active site 420889005505 motif 2; other site 420889005506 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 420889005507 putative deacylase active site [active] 420889005508 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 420889005509 active site 420889005510 motif 3; other site 420889005511 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 420889005512 anticodon binding site; other site 420889005513 RIP metalloprotease RseP; Region: TIGR00054 420889005514 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 420889005515 active site 420889005516 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 420889005517 protein binding site [polypeptide binding]; other site 420889005518 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 420889005519 putative substrate binding region [chemical binding]; other site 420889005520 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 420889005521 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 420889005522 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14830 420889005523 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 420889005524 catalytic residue [active] 420889005525 putative FPP diphosphate binding site; other site 420889005526 putative FPP binding hydrophobic cleft; other site 420889005527 dimer interface [polypeptide binding]; other site 420889005528 putative IPP diphosphate binding site; other site 420889005529 Preprotein translocase subunit; Region: YajC; pfam02699 420889005530 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 420889005531 A new structural DNA glycosylase containing HEAT-like repeats; Region: AlkD_like_1; cd07064 420889005532 active site 420889005533 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 420889005534 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 420889005535 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 420889005536 protein binding site [polypeptide binding]; other site 420889005537 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 420889005538 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 420889005539 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 420889005540 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 420889005541 putative ADP-binding pocket [chemical binding]; other site 420889005542 Protein of unknown function (DUF1797); Region: DUF1797; cl11550 420889005543 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 420889005544 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 420889005545 ligand binding site [chemical binding]; other site 420889005546 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 420889005547 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 420889005548 S-adenosylmethionine binding site [chemical binding]; other site 420889005549 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 420889005550 Alpha amylase catalytic domain found in bacterial and eukaryotic branching enzymes; Region: AmyAc_bac_euk_BE; cd11321 420889005551 active site 420889005552 catalytic site [active] 420889005553 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 420889005554 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 420889005555 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 420889005556 Protein of unknown function (DUF975); Region: DUF975; cl10504 420889005557 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 420889005558 Major Facilitator Superfamily; Region: MFS_1; pfam07690 420889005559 putative substrate translocation pore; other site 420889005560 DNA polymerase I; Provisional; Region: PRK05755 420889005561 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 420889005562 active site 420889005563 metal binding site 1 [ion binding]; metal-binding site 420889005564 putative 5' ssDNA interaction site; other site 420889005565 metal binding site 3; metal-binding site 420889005566 metal binding site 2 [ion binding]; metal-binding site 420889005567 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 420889005568 putative DNA binding site [nucleotide binding]; other site 420889005569 putative metal binding site [ion binding]; other site 420889005570 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 420889005571 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 420889005572 active site 420889005573 DNA binding site [nucleotide binding] 420889005574 catalytic site [active] 420889005575 hypothetical protein; Provisional; Region: PRK12378 420889005576 hypothetical protein; Provisional; Region: PRK13670 420889005577 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 420889005578 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 420889005579 S-adenosylmethionine binding site [chemical binding]; other site 420889005580 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 420889005581 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 420889005582 Zn2+ binding site [ion binding]; other site 420889005583 Mg2+ binding site [ion binding]; other site 420889005584 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 420889005585 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 420889005586 active site 420889005587 (T/H)XGH motif; other site 420889005588 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 420889005589 GTPases [General function prediction only]; Region: HflX; COG2262 420889005590 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 420889005591 HflX GTPase family; Region: HflX; cd01878 420889005592 G1 box; other site 420889005593 GTP/Mg2+ binding site [chemical binding]; other site 420889005594 Switch I region; other site 420889005595 G2 box; other site 420889005596 G3 box; other site 420889005597 Switch II region; other site 420889005598 G4 box; other site 420889005599 G5 box; other site 420889005600 GTPase YqeH; Provisional; Region: PRK13796 420889005601 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 420889005602 GTP/Mg2+ binding site [chemical binding]; other site 420889005603 G4 box; other site 420889005604 G5 box; other site 420889005605 G1 box; other site 420889005606 Switch I region; other site 420889005607 G2 box; other site 420889005608 G3 box; other site 420889005609 Switch II region; other site 420889005610 Negative regulator of septation ring formation [Cell division and chromosome partitioning]; Region: EzrA; COG4477 420889005611 elongation factor Ts; Provisional; Region: tsf; PRK09377 420889005612 UBA/TS-N domain; Region: UBA; pfam00627 420889005613 Elongation factor TS; Region: EF_TS; pfam00889 420889005614 Elongation factor TS; Region: EF_TS; pfam00889 420889005615 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 420889005616 rRNA interaction site [nucleotide binding]; other site 420889005617 S8 interaction site; other site 420889005618 putative laminin-1 binding site; other site 420889005619 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 420889005620 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 420889005621 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 420889005622 putative catalytic cysteine [active] 420889005623 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 420889005624 putative active site [active] 420889005625 metal binding site [ion binding]; metal-binding site 420889005626 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 420889005627 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 420889005628 protein binding site [polypeptide binding]; other site 420889005629 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 420889005630 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 420889005631 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 420889005632 active site 420889005633 (T/H)XGH motif; other site 420889005634 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 420889005635 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 420889005636 S-adenosylmethionine binding site [chemical binding]; other site 420889005637 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 420889005638 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 420889005639 active site 420889005640 dimer interface [polypeptide binding]; other site 420889005641 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 420889005642 dimer interface [polypeptide binding]; other site 420889005643 active site 420889005644 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 420889005645 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 420889005646 active site 420889005647 HIGH motif; other site 420889005648 nucleotide binding site [chemical binding]; other site 420889005649 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 420889005650 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 420889005651 active site 420889005652 KMSKS motif; other site 420889005653 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 420889005654 tRNA binding surface [nucleotide binding]; other site 420889005655 anticodon binding site; other site 420889005656 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 420889005657 Fibronectin-binding protein (FBP); Region: FBP; pfam07299 420889005658 Domain of unknown function (DUF1912); Region: DUF1912; pfam08930 420889005659 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 420889005660 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 420889005661 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 420889005662 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 420889005663 Coenzyme A binding pocket [chemical binding]; other site 420889005664 TRAM domain; Region: TRAM; pfam01938 420889005665 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 420889005666 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 420889005667 S-adenosylmethionine binding site [chemical binding]; other site 420889005668 RecX family; Region: RecX; cl00936 420889005669 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 420889005670 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 420889005671 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 420889005672 putative active site [active] 420889005673 Staphylococcal protein of unknown function (DUF960); Region: DUF960; pfam06124 420889005674 phosphodiesterase YaeI; Provisional; Region: PRK11340 420889005675 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 420889005676 putative active site [active] 420889005677 putative metal binding site [ion binding]; other site 420889005678 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 420889005679 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 420889005680 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 420889005681 dimer interface [polypeptide binding]; other site 420889005682 ssDNA binding site [nucleotide binding]; other site 420889005683 tetramer (dimer of dimers) interface [polypeptide binding]; other site 420889005684 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 420889005685 Amino acid transporters [Amino acid transport and metabolism]; Region: LysP; COG0833 420889005686 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 420889005687 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 420889005688 Walker A motif; other site 420889005689 ATP binding site [chemical binding]; other site 420889005690 Walker B motif; other site 420889005691 arginine finger; other site 420889005692 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 420889005693 substrate binding site [chemical binding]; other site 420889005694 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 420889005695 GAF domain; Region: GAF_2; pfam13185 420889005696 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3877 420889005697 hypothetical protein; Provisional; Region: PRK07248 420889005698 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 420889005699 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 420889005700 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 420889005701 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 420889005702 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 420889005703 DNA binding residues [nucleotide binding] 420889005704 putative dimer interface [polypeptide binding]; other site 420889005705 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 420889005706 Low molecular weight phosphatase family; Region: LMWPc; cd00115 420889005707 active site 420889005708 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 420889005709 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 420889005710 Walker A motif; other site 420889005711 ATP binding site [chemical binding]; other site 420889005712 Walker B motif; other site 420889005713 arginine finger; other site 420889005714 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 420889005715 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 420889005716 RuvA N terminal domain; Region: RuvA_N; pfam01330 420889005717 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 420889005718 helix-hairpin-helix signature motif; other site 420889005719 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 420889005720 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 420889005721 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 420889005722 Ligand binding site; other site 420889005723 Putative Catalytic site; other site 420889005724 DXD motif; other site 420889005725 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 420889005726 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 420889005727 ATP binding site [chemical binding]; other site 420889005728 Mg2+ binding site [ion binding]; other site 420889005729 G-X-G motif; other site 420889005730 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 420889005731 ATP binding site [chemical binding]; other site 420889005732 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 420889005733 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 420889005734 MutS domain I; Region: MutS_I; pfam01624 420889005735 MutS domain II; Region: MutS_II; pfam05188 420889005736 MutS domain III; Region: MutS_III; pfam05192 420889005737 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 420889005738 Walker A/P-loop; other site 420889005739 ATP binding site [chemical binding]; other site 420889005740 Q-loop/lid; other site 420889005741 ABC transporter signature motif; other site 420889005742 Walker B; other site 420889005743 D-loop; other site 420889005744 H-loop/switch region; other site 420889005745 Protein of unknown function (DUF964); Region: DUF964; cl01483 420889005746 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 420889005747 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 420889005748 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 420889005749 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 420889005750 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 420889005751 active site 420889005752 HIGH motif; other site 420889005753 KMSK motif region; other site 420889005754 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 420889005755 tRNA binding surface [nucleotide binding]; other site 420889005756 anticodon binding site; other site 420889005757 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 420889005758 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 420889005759 Protein of unknown function (DUF1634); Region: DUF1634; pfam07843 420889005760 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 420889005761 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 420889005762 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 420889005763 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 420889005764 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 420889005765 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 420889005766 active site 420889005767 motif I; other site 420889005768 motif II; other site 420889005769 chaperone protein DnaJ; Provisional; Region: PRK14276 420889005770 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 420889005771 HSP70 interaction site [polypeptide binding]; other site 420889005772 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 420889005773 substrate binding site [polypeptide binding]; other site 420889005774 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 420889005775 Zn binding sites [ion binding]; other site 420889005776 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 420889005777 dimer interface [polypeptide binding]; other site 420889005778 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 420889005779 CHAP domain; Region: CHAP; pfam05257 420889005780 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 420889005781 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 420889005782 linker region; other site 420889005783 Surface antigen [General function prediction only]; Region: COG3942 420889005784 CHAP domain; Region: CHAP; pfam05257 420889005785 rod shape-determining protein MreD; Region: MreD; cl01087 420889005786 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 420889005787 rod shape-determining protein MreC; Region: MreC; pfam04085 420889005788 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 420889005789 nudix motif; other site 420889005790 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 420889005791 tetramer (dimer of dimers) interface [polypeptide binding]; other site 420889005792 active site 420889005793 dimer interface [polypeptide binding]; other site 420889005794 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 420889005795 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 420889005796 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 420889005797 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 420889005798 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 420889005799 Walker A/P-loop; other site 420889005800 ATP binding site [chemical binding]; other site 420889005801 Q-loop/lid; other site 420889005802 ABC transporter signature motif; other site 420889005803 Walker B; other site 420889005804 D-loop; other site 420889005805 H-loop/switch region; other site 420889005806 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 420889005807 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 420889005808 RNA binding surface [nucleotide binding]; other site 420889005809 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 420889005810 active site 420889005811 uracil binding [chemical binding]; other site 420889005812 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 420889005813 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 420889005814 trmE is a tRNA modification GTPase; Region: trmE; cd04164 420889005815 G1 box; other site 420889005816 GTP/Mg2+ binding site [chemical binding]; other site 420889005817 Switch I region; other site 420889005818 G2 box; other site 420889005819 Switch II region; other site 420889005820 G3 box; other site 420889005821 G4 box; other site 420889005822 G5 box; other site 420889005823 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 420889005824 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 420889005825 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 420889005826 generic binding surface II; other site 420889005827 ssDNA binding site; other site 420889005828 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 420889005829 ATP binding site [chemical binding]; other site 420889005830 putative Mg++ binding site [ion binding]; other site 420889005831 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 420889005832 nucleotide binding region [chemical binding]; other site 420889005833 ATP-binding site [chemical binding]; other site 420889005834 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 420889005835 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 420889005836 PhnA protein; Region: PhnA; pfam03831 420889005837 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 420889005838 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 420889005839 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 420889005840 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 420889005841 potential frameshift: common BLAST hit: gi|281492925|ref|YP_003354905.1| cation-transporting ATPase 420889005842 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 420889005843 potential frameshift: common BLAST hit: gi|125625294|ref|YP_001033777.1| cation transporting ATPase 420889005844 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 420889005845 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 420889005846 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 420889005847 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 420889005848 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 420889005849 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 420889005850 motif II; other site 420889005851 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 420889005852 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 420889005853 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 420889005854 putative active site [active] 420889005855 catalytic site [active] 420889005856 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 420889005857 putative active site [active] 420889005858 catalytic site [active] 420889005859 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 420889005860 MgtC family; Region: MgtC; pfam02308 420889005861 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 420889005862 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 420889005863 23S rRNA interface [nucleotide binding]; other site 420889005864 L3 interface [polypeptide binding]; other site 420889005865 ribonuclease HIII; Provisional; Region: PRK00996 420889005866 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 420889005867 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 420889005868 RNA/DNA hybrid binding site [nucleotide binding]; other site 420889005869 active site 420889005870 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 420889005871 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 420889005872 Catalytic site [active] 420889005873 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 420889005874 Predicted membrane protein (DUF2127); Region: DUF2127; cl01785 420889005875 pur operon repressor; Provisional; Region: PRK09213 420889005876 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 420889005877 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 420889005878 active site 420889005879 elongation factor G; Reviewed; Region: PRK00007 420889005880 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 420889005881 G1 box; other site 420889005882 putative GEF interaction site [polypeptide binding]; other site 420889005883 GTP/Mg2+ binding site [chemical binding]; other site 420889005884 Switch I region; other site 420889005885 G2 box; other site 420889005886 G3 box; other site 420889005887 Switch II region; other site 420889005888 G4 box; other site 420889005889 G5 box; other site 420889005890 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 420889005891 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 420889005892 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 420889005893 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 420889005894 OPT oligopeptide transporter protein; Region: OPT; pfam03169 420889005895 30S ribosomal protein S7; Validated; Region: PRK05302 420889005896 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 420889005897 S17 interaction site [polypeptide binding]; other site 420889005898 S8 interaction site; other site 420889005899 16S rRNA interaction site [nucleotide binding]; other site 420889005900 streptomycin interaction site [chemical binding]; other site 420889005901 23S rRNA interaction site [nucleotide binding]; other site 420889005902 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 420889005903 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 420889005904 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 420889005905 non-specific DNA binding site [nucleotide binding]; other site 420889005906 salt bridge; other site 420889005907 sequence-specific DNA binding site [nucleotide binding]; other site 420889005908 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 420889005909 Beta-lactamase; Region: Beta-lactamase; cl17358 420889005910 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 420889005911 amino acid transporter; Region: 2A0306; TIGR00909 420889005912 Putative glucose uptake permease [Carbohydrate transport and metabolism]; Region: GlcU; COG4975 420889005913 Putative rRNA methylase; Region: rRNA_methylase; pfam06962 420889005914 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 420889005915 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 420889005916 FeS/SAM binding site; other site 420889005917 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 420889005918 ParB-like nuclease domain; Region: ParBc; pfam02195